title: HepG2 fentanyl-treated rep 2

city: Cincinnati

first: Rebekah

last: Karns

state: OH

address: 3333 Burnet Ave

department: Gastroenterology, Hepatology, & Nutrition

institute: Cincinnati Children's Hospital Medical Center

description: Cell line HepG2 treated with fentanyl

data_processing:
Base calling was performed with the Illumina HiSeq system at 50bp reads.
Following the removal of primers and barcodes, raw reads were aligned to the Hg38 genome using Kallisto, which employs pseudoalignment to rapidly and accurately determine compatibility of reads with genomic targets.
Annotations were provided by UCSC, with output of transcripts per million (TPM).
Genome_build: Hg38
Supplementary_files_format_and_content: tab-delimited files with EnsID and TPM for each sample.

source_name: Liver cell line

growth_protocol: The Huh7.5JFH1 and HepG2.2.15 cell lines were seeded at 500,000 cells per well. and maintained in DMEM high glucose medium supplemented with 10% FBS, penicillin (100 U/mL), and streptomycin (100 mg/mL).

extract_protocol:
The NEBNext Poly (A) mRNA Magnetic Isolation Module (New England Biolabs, Ipswich, MA) was utilized for polyA RNA purification with a total of 300 ng total RNA as input.
A PrepX mRNA Library kit (WaferGen) combined with Apollo 324 NGS automated library prep system was used for library preparation.

treatment_protocol: Fentanyl or carfentanil was added to culture medium after 24 hours, at 100ng/mL.

tag: agent

value: Fentanyl


title: shoot_4DAS_Per-1_rep3

status: Public on Apr 21 2021

type: SRA

city: Beijing

first: Wenwen

last: Liu

address: No.5 Yiheyuan Road, Haidian District

country: China

institute: Peking University

library_source: transcriptomic

data_processing:
Quality control was conducted using fastp version 0.20.0 with the parameter length_required set to 150
Quantification of transcript expression was performed using Salmon version 1.0.0 against a reference transcript dataset for Arabidopsis, AtRTDv2_QUASI_19April2016 (Zhang et al., 2017) with parameters salmon index --type puff -k 31 and salmon quant -l IU --numBootstraps 30 --seqBias --validateMappings
The transcript-level quantifications were merged to the gene-level and then the length scaled transcripts per kilobase million (TPM) and estimated read counts were calculated for genes using the R package tximport version 1.12.3 with the option “lengthScaledTPM”
Genome_build: Arabidopsis Thaliana Reference Transcript Dataset 2 (AtRTD2), a comprehensive, non-redundant, high quality transcript reference dataset developed for RNA-seq analysis. It is generated by integration of transcript assemblies of ca. 8.5 billion pairs of reads from 285 RNA-seq data sets obtained from 129 RNA-seq libraries and merged along with the previous version, AtRTD (which covers TAIR10 transcripts and transcripts from Marquez et al., 2012), and Araport11 transcript assemblies
Supplementary_files_format_and_content: Matrix table with TPM value for every gene and every sample
Supplementary_files_format_and_content: Matrix table with normalized gene counts for every gene and every sample

molecule: total RNA

organism: Arabidopsis thaliana

source_name: seedling

growth_protocol: The plants were grown on MS plates containing 1% sucrose under long-day condition (16-h light with intensity of 18 W/m2 at 22 °C and 8-h dark at 18 °C) after surface-sterilization followed by 7-day stratification of the seeds.

extract_protocol:
flash frozen in liquid nitrogen, and RNA was extracted using an RNeasy Plant Mini Kit (Qiagen), followed by on-column DNase treatment.
RNA libraries were prepared for sequencing using standard Illumina protocols

tag: genotype

tag: tissue

value: seedling shoot

tag: age

value: 4DAS (days after sowing)


title: TB_RNAPII_XC

city: Bergen

first: Pavla

last: Navratilova

address: Thorm hlensgt. 55

department: Sars International Centre for Marine Molecular Biology

country: Norway

institute: University of Bergen

library_source: genomic

data_processing:
Basecalls performed using CASAVA version 1.4
Sequenced reads were trimmed for adaptor sequence using cutadapt (v1.9.1), and masked for low-complexity or low-quality sequence.
Paired-end reads were mapped using bowtie2 (v2.2.4) with the following parameters: -k 1,
Alignments were deduplicated (samtools rmdup) and filtered for sufficient alignment quality (samtools view -q 30) and all unpaired or discordant alignments were excluded.
RPKM normalized log2 bigWig tracks for alignments were generated at 20 bp resolution using deeptools v2
Genome_build: od01
Supplementary_files_format_and_content: BigWig files generated using deeptools v2

molecule: genomic DNA

organism: Oikopleura dioica

source_name: tailbud

growth_protocol: Oikopleura dioica animals were grown in synchronous cultures in 6 l beakers as described in (Bouquet et al., 2009). Tailbud stage larvae were collected from individual IVFs. Maturing gonads were dissected manually form day 5 animals

extract_protocol:
ChIP was performed according to (Navratilova et al. 2017), finalized by library preparation using NEBNext Ultra II. Histone modification antibodies as listed in the Supplemental Table 1 were used.
Following ChIP-seq, fragments were purified using Phenol-chlorophorm extractions and ethanol precipitation followed by Qiagen MinElute PCR Purification Kit. NEBNext UltraII Library preparation kit was used for library preparation. The number of cycles for final amplification varied between 8-15 cycles. Fragment sizes of barcoded libraries were assessed using Bioanalyzer libraries were purified using AMPure beads before pooling and sequencing. Pooled libraries were sequenced in a 2x75bp Paired-End format on HiSeq2500/4000 or HiSeq X-ten platform yielding about 50M reads per sample.
Illumina (NEBnext UltraII library preparation kit)

value: tailbud

tag: antibody

value: Abcam ab5131


title: TB_RNAPII_XB


title: CD45+ cells_aortas_regression control

city: New York

first: Emily

last: Brown

state: NY

address: 435 E 30th St

department: Medicine

country: USA

institute: NYU Langone

data_processing:
quality control, Cell Ranger Single Cell Software Suite
sample de-multiplexing, Cell Ranger Single Cell Software Suite
barcode processing, Cell Ranger Single Cell Software Suite
single cell 3' gene counting, Cell Ranger Single Cell Software Suite
alignment, Cell Ranger Single Cell Software Suite
Genome_build: mm10
Supplementary_files_format_and_content: Filtered matrix of gene expression by cell, file with barcodes and file with expressed genes.  Files are ready to be import into Seurat package or similar.

organism: Mus musculus

source_name: CD45+ cells

extract_protocol: The whole aorta was carefully isolated, and the perivascular fat was removed. Then the aortic tissue was cut into as small pieces as possible and incubated at 37°C for 15 minutes with enzyme mixture containing DNase I (40 U/ml), liberase (4 U/ml), hyaluronidase (60 U/ml). Live CD45+ cells were sorted out using BD FACSAriaIII. The cells are resuspended in final concentration of ~500 cells/µL in 1X HBSS containing 0.04% BSA to minimize cell loss and aggregation. ~12,000 cells are partitioned into nanoliter-scale Gel Bead-In-EMulsions (GEMs) to achieve single cell resolution for a maximum recovery of 10,000 individual cells per sample. Utilizing the v2 Chromium™ Single Cell 3' Library Kit and Chromium instrument (10x Genomics), poly-adenylated mRNA from an individual cell is tagged with a unique 16bp 10x barcode and 10bp Unique Molecular Identifier. Full length cDNA is then amplified to generate sufficient mass for library construction. Enzymatic fragmentation and size selection are used to optimize the cDNA amplicon size (~400bp) for library construction. The final library is sequence ready and contains four unique sample indexes. The concentration of the 10x single cell library will be accurately determined through qPCR (Kapa Biosystems) to produce cluster counts appropriate for the HiSeq4000 platform (Illumina). 26x98nt read lengths are generated targeting 50,000 reads per cell.

value: atherosclerotic lesion

tag: strain

value: Ldlr-/-

tag: disease state

value: atherosclerosis regression


title: 3m_2_scATAC

city: Guangzhou

first: Yuchen

last: Yang

state: Guangdong

address: Xingangxi Road 135

institute: Sun Yat-sen University

data_processing:
Qualities of de-barcoded raw sequence reads were checked by fastqc.
Raw sequencing data was demultiplexed, debarcoded, mapped to Cell Ranger pre-built mm10 genome, and counted following the Cell Ranger ATAC v.1.1.0 pipeline. The Cell Ranger output of collapsed UMI counts were then processed and analyzed in R.
Genome_build: Cell Ranger pre-built mm10 reference
Supplementary_files_format_and_content: two csv files containing peak status for each cell in the two samples, respectively

source_name: cardiac

growth_protocol: Mice were raised and maintained under standard laboratory conditions.

extract_protocol:
Isolated non-myocytes were probed with 7-Amino Actinomycin D (7-AAD, R&D Systems) at 4 °C in the dark for 15min. The cells were pelleted, and then resuspended with 0.04%BSA/PBS buffer. Flow cytometry sorting was performed on Becton Dickinson FACSAria II, and the single live cells (7-AAD negative) were captured and collected in buffer containing0.04%BSA/PBS. Following sorting, cell number of each sample were manually counted, and adjusted to 1e6 cells/ml for subsequent single cell RNA sequencing via Chromium (10X Genomics) platform.
Illumina libraries were prepared using Chromium Single Cell ATAC v1.0.

value: heart

value: 10-12 weeks

value: wild type


title: shoot_4DAS_F1_rep1

value: Col-0 x Per-1 F1


title: shoot_4DAS_Col-0_rep3


title: HepG2 fentanyl-treated rep 1

description: Cell line HepG2 treated with fentanyl

organism: Homo sapiens

tag: cell line


title: shoot_4DAS_Per-1_rep2


title: Vegetative stage replicate 3 [HiSeq]

city: Boston

first: Eric

last: Greer

state: MA

address: 320 Longwood Avenue

department: Newborn Medicine/Department of Pediatrics

institute: Boston Children's Hospital/Harvard Medical School

description:
V3
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: raw_sc_Dicty_3_stage.tsv
processed data file: raw_sc_Dicty_3_stage_ds.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_3_stage.tsv
processed data file: normalized_sc_Dicty_3_stage_ds.tsv
processed data file: Metadata_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_3_stage.tsv
processed data file: Metadata_Dicty_3_stage_ds.tsv

data_processing:
Sequence reads were aligned, quantified by Cell Ranger with default setting except using normalized="none" for aggr function.
Low quality cellsor outliers were filtered out from the data by the following threshold: 200 < total Gene count < 7000, 500 <total UMI count <30000.
Normalization (SCTransform), batch correction (Harmony) and dimension reduction (PCA and UMAP) were conducted in Seurat.
raw_sc_Dicty_3_stage.tsv was generated by removing streaming stage cells from the matrix.
raw_sc_Dicty_3_stage_ds.tsv (used for pseudotime analysis) was generated by downsampling the raw_sc_Dicty_3_stage.tsv.
Genome_build: AX4
Supplementary_files_format_and_content: Matrix of UMI counts per gene for each cell.
Supplementary_files_format_and_content: The information (cell stage, batch…) of each cell barcode in the quantification matrix file.

organism: Dictyostelium discoideum AX4

source_name: Vegetative cells

growth_protocol: We cultured te strain at 22 °C shaken in the incubator at 180 rpm in HL5 medium with 300 μg/ml streptomycin.

extract_protocol:
Cells were dissociated into single cells from different stages by physical pipetting with PBS + 0.04% BSA. The cell numbers were counted using a microscope.
Cell from each sample were subject to Chromium Single Cell Gene Expression kit V3 (10x Genomics) for library construction according to the manufacturer’s instructions.

tag: developmental stage

value: Vegetative

value: WT


title: Input_3

type: RNA

city: Ulm

first: Axel

last: Freischmidt

address: Albert-Einstein-Allee 11

department: Neurology

country: Germany

institute: Ulm University

description: low molecular weight RNA of HEK293 cells

hyb_protocol: according to the instructions in the FlashTagTM Biotin HSR RNA Labeling Kit

scan_protocol: according to Affymetrix protocols using a GeneChip 3000 Scanner

data_processing: Affymetrix Expression Console 1.4.1.46 for normalization (RMA+DBAG; human only); BRB Array tools for statistical analysis

label: biotin

source_name: Input

label_protocol: FlashTagTM Biotin HSR RNA Labeling Kit (Genisphere, LLC, Hatfield, PA, USA) according to the instructions of the manufacturer

growth_protocol: HEK293 cells were grown under standard conditions (37° C; 5% CO2) in DMEM (Thermo Fisher Scientifc #41965039) supplemented with 10% fetal bovine serum.

extract_protocol: Low molecular weight RNA from HEK293 cells was isolated using RNAzol RT (Sigma-Aldrich #R4533) and further purified with the Direct-zol RNA MicroPrep Kit (Zymo Research #R2060). After incubation of the RGG/RG-domains with the low molecular weight RNA, recombinant proteins were recovered using Ni-NTA-Agarose (Qiagen) and the co-purifying RNA isolated directly from the beads using RNAzol RT and the Direct-zol RNA Microprep Kit.

tag: recombinant proteins


title: shoot_4DAS_Col-0_rep2


title: 3m_1_scATAC


title: Vegetative stage replicate 2 [HiSeq]

description:
V2
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: raw_sc_Dicty_3_stage.tsv
processed data file: raw_sc_Dicty_3_stage_ds.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_3_stage.tsv
processed data file: normalized_sc_Dicty_3_stage_ds.tsv
processed data file: Metadata_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_3_stage.tsv
processed data file: Metadata_Dicty_3_stage_ds.tsv


title: TB_H3K27ac_A

value: Abcam ab4729


title: DENV

city: Zhunan

first: Ling-Jun

last: Ho

address: 35, Keyan Road, Zhunan Town

department: Institute of Cellular and System Medicine

country: Taiwan

institute: National Health Research Institute

hyb_protocol: Samples were hybridized with GeneChip Human Gene 2.0 ST Arrays (Affymetrix) and scanned at the NHRI Microarray Core Facility.

scan_protocol: Array scanning was performed according to the manufacturer's instruction (Affymetrix)

data_processing: The data were analyzed using Affymetrix Expression Console™ Software (version 1.4) default analysis settings and RMA (Robust Multi-Array) summarization and normalization options.

source_name: DENV

label_protocol: Single-stranded cDNA was generated from the amplified cRNA with the WT Plus cDNA Synthesis Kit (Affymetrix) and then fragmented and labeled with the WT Terminal Labeling Kit (Affymetrix).

extract_protocol: RNA extraction by Trizol. RNA purity was checked by optical density of NanoDrop ND-1000 and agarose electrophoresis with the result of A260/A280≧1.8, no gDNA contamination. RNA integrity was measured by Agilent RNA 6000 Nano Assay (RIN≧7).

tag: cell type

value: dendritic cells

value: DENV


title: shoot_4DAS_Col-0_rep1


title: HepG2 ctrl rep 1

description: Cell line HepG2 with no treatment


title: KCERT_GNAT3_KO_2

city: Ann Arbor

first: Brian

last: Magnuson

state: MI

address: 1500 East Medical Center Drive

institute: University of Michigan

data_processing:
Read alignment and counting was carried out via Cell Ranger (10X Genomics), v3.0.0 For replicate group 1 (KCERT_1 and KCERT_GNAT3_KO_1) and v3.1.0 for replicate group 2 (KCERT_2 and KCERT_GNAT3_KO_2).
A custom mouse gene reference was used that included the base GRCm38/mm10 referenced and the yellow fluorescent protein (YFP) sequence.
fastq files were extracted from bam files using cellranger bamtofastq (cellranger v3.1.0).
Genome_build: mm10
Supplementary_files_format_and_content: For each sample, barcodes (TSV), features (TSV), and counts matrix (MTX) files are included, both filtered and unfiltered (raw).

source_name: pancreas

extract_protocol:
Pancreas was collected, lymph nodes removed, digested with 1 mg/ml collagenase type V and filtered to single cells. Dead cells were excluded using MACS Dead Cell Removal Kit.
Cells were processed using the 10x Genomics Chromium Controller and the associated Chromium library and gel bead kits.

treatment_protocol: GNAT3 ablated or wild type controls harboring Ptf1aCreERT/+; KrasLSL-G12D/+; R26LSL-EYFP/+ alleles were treated with 5 mg of tamoxifen for 5 days at 8- to 10- weeks old then cerulein treated for 5 days at 250 mg/kg and harvested after 6 weeks.

value: Kras LSL-G12D/+; Ptf1a CreERT/+; R26 LSL-EYFP; Gnat3 -/-


title: Vegetative stage replicate 1 [HiSeq]

description:
V1
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: raw_sc_Dicty_3_stage.tsv
processed data file: raw_sc_Dicty_3_stage_ds.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_3_stage.tsv
processed data file: normalized_sc_Dicty_3_stage_ds.tsv
processed data file: Metadata_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_3_stage.tsv
processed data file: Metadata_Dicty_3_stage_ds.tsv


title: shoot_3DAS_Per-1_rep3

value: seedling shoot

value: 3DAS (days after sowing)


title: Streaming stage replicate 3 [HiSeq]

description:
St3
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_4_stage.tsv

source_name: Streaming cells

value: Streaming


title: Huh7.5 fentanyl-treated rep 1

description: Cell line Huh7.5-JFH1 treated with fentanyl

value: Huh7.5 - JFH1

value: Fentanyl


title: Streaming stage replicate 2 [HiSeq]

description:
St2
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_4_stage.tsv


title: shoot_3DAS_Per-1_rep2


title: Streaming stage replicate 1 [HiSeq]

description:
St1
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_4_stage.tsv


title: Huh7.5 ctrl rep 1

description: Cell line Huh7.5-JFH1 with no treatment


title: Huh7.5 ctrl rep 2

description: Cell line Huh7.5-JFH1 with no treatment


title: shoot_3DAS_F1_rep3


title: shoot_3DAS_Per-1_rep1


title: HepG2 ctrl rep 2

description: Cell line HepG2 with no treatment


title: Mock

source_name: Mock

value: Mock


title: shoot_3DAS_F1_rep2


title: Slug stage replicate 3 [HiSeq]

description:
Slug3
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: raw_sc_Dicty_3_stage.tsv
processed data file: raw_sc_Dicty_3_stage_ds.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_3_stage.tsv
processed data file: normalized_sc_Dicty_3_stage_ds.tsv
processed data file: Metadata_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_3_stage.tsv
processed data file: Metadata_Dicty_3_stage_ds.tsv

source_name: Slug cells

value: Slug


title: Slug stage replicate 2 [HiSeq]

description:
Slug2
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: raw_sc_Dicty_3_stage.tsv
processed data file: raw_sc_Dicty_3_stage_ds.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_3_stage.tsv
processed data file: normalized_sc_Dicty_3_stage_ds.tsv
processed data file: Metadata_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_3_stage.tsv
processed data file: Metadata_Dicty_3_stage_ds.tsv


title: Huh7.5 fentanyl-treated rep 2


title: SREBP2_in_HCT116

city: Shanghai

first: Qiang

last: Pan

address: 320 Yue Yang Road

institute: Chinese Academy of Sciences

data_processing:
For RNA seq, paired-end reads were aligned to the mouse reference genome mm10 with HISAT2. The whole samples expression levels were presented as RPKM. The statistically significant DE genes were obtained by an adjusted P-value <0.05 and foldchange > 1.5 using the DEGseq software.
For ChIP sequencing analysis: The 75-nt sequence reads generated by Illumina sequencing (using NextSeq 500) are mapped to the genome using the Bowtie2 with default settings. Alignment information for each read is stored in the BAM format. Only reads that pass Illumina’s purity filter, align with no more than 2 mismatches, and map uniquely to the genome are used in the subsequent analysis. In addition, unless stated otherwise, duplicate reads (“PCR duplicates”) are removed.
For ChIP-seq, the generic term “Interval” is used to describe genomic regions with local enrichments in tag numbers using ChIPseeker. Intervals are defined by the chromosome number and a start and end coordinate. The peak calling was performed using MACS2 (FDR<0.005). Bigwig files were generated from BAM based on Deeptools function with default setting (Bin = 10). Both methods look for significant enrichments in the ChIP/IP data file when compared to the Input data file (~ random background).
Genome_build: mm10 (GRCm38) for RNAseq; hg38 (GRCh38) for ChIPseq.
Supplementary_files_format_and_content: bigWig file

source_name: colorectal cancer cell line

growth_protocol: For ChIP seq, HCT116 cells were cultured with 10% FBS.

extract_protocol: For ChIP-seq, HCT116 cells (10^7 cells) were harvested and followed using the antibody against ZMYND8 (Bethyl A302-090A) and SREBP2 antibody (Cayman, 10007663).

treatment_protocol: For ChIP seq, HCT116 cells were treated with 10% LPDS for 24 hours.

value: colorectal cancer cells

tag: treatment

value: 10% LPDS for 24 hours

value: SREBP2 (Cayman 10007663)


title: shoot_3DAS_F1_rep1

value: Col-0 x Per-1 F1


title: 24h dpi Bc Gd-treated leaves

city: Cuernavaca

first: Damien

last: Formey

state: Morelos

address: Avenida de la Universidad

department: Center for Genomic Science

country: Mexico

institute: UNAM

data_processing:
Contamination and adapter removal was carried out using in-house Perl scripts
Fastq sequences were filtered based on quality (FASTQ Quality Filter v0.0.6, Q 33
mapped on A. thaliana transcriptome (TAIR10) thanks to Bowtie2
Gene expression was calculated using RSEM v1.3
Genome_build: Arabidopsis thaliana TAIR10
Supplementary_files_format_and_content: tab-delimited txt file of RSEM FPKM counts

source_name: Leaves

growth_protocol: Arabidopsis thaliana ecotype Columbia-0 (Col-0) was obtained from the Nottingham Arabidopsis Stock Centre (Nottingham, UK). Plants grown under in vitro conditions, were generated from surface-sterilized seeds germinated in square petri dishes containing Murashige and Skoog (MS) media supplemented with 0.6% agar and 1% sucrose. Plates were kept at 4°C for two days and incubated vertically at 21°C during 10 days in a growth chamber with 16 h light/8 h dark photoperiod. For ex vitro experiments, Arabidopsis thaliana seeds were grown on a pasteurized soil mix of humus and perlite (3:1), kept at 4°C for two days and then transferred to the growth chamber. Plants were grown during 4 weeks in a 12 h light/12 h dark cycle with 60–70% of relative humidity, at a day temperature of 20-22ºC and a night temperature of 16-18ºC.

extract_protocol:
RNA was prepared using the Trizol reagent containing 38% saturated phenol, 0.8 M guanidine thiocyanate, 0.4 M ammonium thiocyanate, 0.1 M sodium acetate and 5% glycerol as previously described (Blanc et al., 2018)
The RNA-seq libraries were prepared from total RNA using the Illumina TruSeq RNA Sample Preparation Kit (Illumina, San Diego, CA, USA) following the manufacturer’s instructions

treatment_protocol: Gadolinium treatment of plants grown under in vitro conditions.     Surface-sterilized Arabidopsis thaliana seeds were incubated during 1 hour with 0.2 mg/l gadolinium (III) nitrate hexahydrate (Gd(NO3)3•6H2O) or 0.2 mg/l calcium nitrate (Ca(NO3)2) as mock. Seeds were germinated as described above and 10 days post germination the primary root length was measured.     Gadolinium treatment and Botrytis cinerea plant inoculation.    4-week-old Arabidopsis thaliana plants were sprayed until saturation with 0.2 mg/l of gadolinium (III) nitrate hexahydrate, 0.2 mg/l of calcium nitrate or H2O for 24, 48, 72, 96 or 120 hours post treatment (hpt), as indicated in the Figure legends . After this time, 3 µl droplets containing Botrytis cinerea spore suspension (5x104 spores ml-1) were applied. Botrytis cinerea infection procedure and lesion size measurement were performed as previously described (L'Haridon et al., 2011). For the dose-response assay, plants were pre-treated with the indicated concentration of gadolinium (III) nitrate hexahydrate or calcium nitrate and evaluated at 72 hours post infection (hpi). For the systemic assay, two methodologies were used: (i) half of the rosette leaves of 4-weeks-old Arabidopsis thaliana plants were pre-treated with 0.2 mg/ml gadolinium (III) nitrate hexahydrate or calcium nitrate (local) and the other half with H2O (systemic) and (ii) 4-weeks-old Arabidopsis thaliana plants were pre-treated (watering the soil until saturation) with 0.2 mg/ml gadolinium (III) nitrate hexahydrate or calcium nitrate. For both conditions, 24 hpt leaves were infected with Botrytis cinerea and evaluated at 72 hpi.

value: Leaves

tag: ecotype

value: 24h dpi Bc Gd-treated


title: KCERT_2

value: Kras LSL-G12D/+; Ptf1a CreERT/+; R26 LSL-EYFP


title: Slug stage replicate 1 [HiSeq]

description:
Slug1
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: raw_sc_Dicty_3_stage.tsv
processed data file: raw_sc_Dicty_3_stage_ds.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_3_stage.tsv
processed data file: normalized_sc_Dicty_3_stage_ds.tsv
processed data file: Metadata_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_3_stage.tsv
processed data file: Metadata_Dicty_3_stage_ds.tsv

value: WT


title: Fruiting stage replicate 3 [HiSeq]

description:
F3
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: raw_sc_Dicty_3_stage.tsv
processed data file: raw_sc_Dicty_3_stage_ds.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_3_stage.tsv
processed data file: normalized_sc_Dicty_3_stage_ds.tsv
processed data file: Metadata_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_3_stage.tsv
processed data file: Metadata_Dicty_3_stage_ds.tsv

source_name: Fruiting stage cells

value: Fruiting


title: 24h dpi Bc Mock-inoculated leaves

value: 24h dpi Bc Mock inoculated


title: Gd-treated leaves

value: Gd-treated


title: shoot_3DAS_Col-0_rep2

value: seedling shoot

value: 3DAS (days after sowing)


title: shoot_3DAS_Col-0_rep3


title: AGS podofilox treatment cell rep4

city: Xining

first: Juan

last: An

state: Please Select

address: No.251 of Ningzhang Road

institute: Qinghai University

description: Gene expression data

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Gene 2.0.

scan_protocol: GeneChips were scanned using the GeneChip Scanner 3000

data_processing: The data were analyzed with RMA using Affymetrix default analysis settings and global scaling as normalization method.

source_name: Gastric cell lines

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA

growth_protocol: AGS cells were maintained in medium supplemented with 10% fetal bovine serum (Gibco; Thermo Fisher Scientific, Inc. California, USA) and 1% penicillin/streptomycin, at 37˚C with 5% CO2.

extract_protocol: Total RNA was extracted from AGS cells treated with or without podofilox using TRIzol® reagent (Invitrogen; Thermo Fisher Scientific, Inc.)

treatment_protocol: Podofilox treatment for 72 hours, 3.4nM

value: Gastric cell line AGS

value: podofilox


title: Fruiting stage replicate 2 [HiSeq]

description:
F2
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: raw_sc_Dicty_3_stage.tsv
processed data file: raw_sc_Dicty_3_stage_ds.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_3_stage.tsv
processed data file: normalized_sc_Dicty_3_stage_ds.tsv
processed data file: Metadata_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_3_stage.tsv
processed data file: Metadata_Dicty_3_stage_ds.tsv


title: AGS podofilox treatment cell rep3

description: Gene expression data


title: AGS podofilox treatment cell rep1

description: Gene expression data


title: Fruiting stage replicate 1 [HiSeq]

description:
F1
mRNA
scRNA-seq
processed data file: raw_sc_Dicty_4_stage.tsv
processed data file: raw_sc_Dicty_3_stage.tsv
processed data file: raw_sc_Dicty_3_stage_ds.tsv
processed data file: normalized_sc_Dicty_4_stage.tsv
processed data file: normalized_sc_Dicty_3_stage.tsv
processed data file: normalized_sc_Dicty_3_stage_ds.tsv
processed data file: Metadata_Dicty_4_stage.tsv
processed data file: Metadata_Dicty_3_stage.tsv
processed data file: Metadata_Dicty_3_stage_ds.tsv


title: shoot_3DAS_Col-0_rep1


title: RNA sequencing Monkey3-Kidney biological replicate 3

status: Public on Apr 20 2021

city: Chengdu

first: jin

last: long

address: Hui ming

institute: Sichuan Agricultural University

description:
Monkey3-Kidney
monkey_exp.txt

data_processing:
Gene-level expression was estimated as transcripts per million (TPM) using the high-speed transcript quantification tool Kallisto (version 0.43.0).
Genome_build: Felis_catus_6.2, Gallus_gallus-5.0, CanFam3.1, Cavpor3.0, Mmul_8.0.1, GRCm38.p5, OryCun2.0, Rnor_6.0, Oar_v3.1
Supplementary_files_format_and_content: genes expression level (TPM) text file

organism: Macaca mulatta

source_name: Kidney

extract_protocol:
Total RNA was extracted using the RNeasy Mini Kit (Qiagen).
We used an rRNA depletion protocol (Ribo-Zero kit, Epicentre) coupled with the Illumina TruSeq stranded RNA-Seq library protocol to construct the RNA-Seq libraries. All libraries were quantified using the Qubit dsDNA High Sensitivity Assay Kit (Invitrogen) and sequenced on HiSeq X Ten (Illumina) platform to produce average ~ 49 million 150-bp paired-end raw reads and ~ 48 million high-quality reads for each library.

tag: breed

value: Rhesus

value: Kidney

value: Adult

tag: Sex

value: female


title: RNA sequencing Monkey3-Lung biological replicate 3

description:
Monkey3-Lung
monkey_exp.txt

source_name: Lung

value: Lung


title: RNA sequencing Monkey3-Skeletal-muscle biological replicate 3

description:
Monkey3-Skeletal-muscle
monkey_exp.txt

source_name: Skeletal muscle

value: Skeletal muscle


title: RNA sequencing Monkey3-Liver biological replicate 3

description:
Monkey3-Liver
monkey_exp.txt

source_name: Liver

value: Liver


title: RNA sequencing Monkey3-Heart biological replicate 3

description:
Monkey3-Heart
monkey_exp.txt

source_name: Heart

value: Heart


title: RNA sequencing Monkey2-Spleen biological replicate 2

description:
Monkey2-Spleen
monkey_exp.txt

source_name: Spleen

value: Spleen


title: AGS podofilox treatment cell rep2

description: Gene expression data


title: RNA sequencing Monkey3-Spleen biological replicate 3

description:
Monkey3-Spleen
monkey_exp.txt


title: RNA sequencing Monkey2-Skeletal-muscle biological replicate 2

description:
Monkey2-Skeletal-muscle
monkey_exp.txt


title: RNA sequencing Monkey2-Lung biological replicate 2

description:
Monkey2-Lung
monkey_exp.txt


title: RNA sequencing Monkey2-Liver biological replicate 2

description:
Monkey2-Liver
monkey_exp.txt


title: RNA sequencing Monkey2-Adipose biological replicate 2

description:
Monkey2-Adipose
monkey_exp.txt

source_name: Adipose

value: Adipose


title: RNA sequencing Monkey2-Kidney biological replicate 2

description:
Monkey2-Kidney
monkey_exp.txt


title: AGS control rep4

description: Gene expression data

value: control


title: RNA sequencing Monkey2-Heart biological replicate 2

description:
Monkey2-Heart
monkey_exp.txt


title: AGS control rep2

description: Gene expression data


title: RNA sequencing Monkey1-Spleen biological replicate 1

description:
Monkey1-Spleen
monkey_exp.txt


title: RNA sequencing Monkey1-Skeletal-muscle biological replicate 1

description:
Monkey1-Skeletal-muscle
monkey_exp.txt


title: Input_1

source_name: Input


title: AGS control rep1

description: Gene expression data


title: AGS control rep3

description: Gene expression data


title: Mock-inoculated leaves

value: Leaves

value: Mock inoculated


title: RNA sequencing Monkey1-Lung biological replicate 1

description:
Monkey1-Lung
monkey_exp.txt


title: RNA sequencing Monkey1-Liver biological replicate 1

description:
Monkey1-Liver
monkey_exp.txt


title: RNA sequencing Monkey1-Kidney biological replicate 1

description:
Monkey1-Kidney
monkey_exp.txt


title: HQ32

first: Jingliang

last: Qin

address: Fengtai East Street

country: Zimbabwe

institute: State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology

data_processing:
Read quality statistics were evaluated using FastQC
Sequenced reads were trimmed using Trimmomatic.
Aligned reads were annotated and counted using HTSeq (v0.6.1).
Genome_build: Yersinia pestis YN1683
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample ...

organism: Yersinia pestis

source_name: Apodemus chevrieri

extract_protocol:
Total RNA was isolated from the four Yersinia pestis strains using the Qiagen RNeasy® Mini kit (No. 74104) and RNAprotect Bacteria Reagent (No. 76506), and purification was performed according to the manufacturer’s instructions.
Sequencing libraries were generated using NEBNext® UltraTM RNA Library Prep Kit for Illumina® (NEB, USA) following manufacturer’s recommendations and index codes were added to attribute sequences to each sample.The prepared libraries were sequenced on an Illumina Novaseq platform and 150-bp paired-end reads were obtained.

tag: type

value: low virulence


title: RNA sequencing Monkey1-Heart biological replicate 1

description:
Monkey1-Heart
monkey_exp.txt


title: LJ236

source_name: Eothenomys cachinus

value: high virulence


title: HQ16

source_name: Eothenomys miletus


title: LJMS


title: Hi-C data of Cat sequenced by NovaSeq-6000

data_processing:
Basecalls performed using CASAVA version 1.4
Read pair flies in fastq format were aligned to the reference genome, filtered and binned into raw and normalized 2D contact matrices using Juicer
TADs were identified using DomainCaller
Genome_build: Rnor_6.0, OryCun2.0, Sscrofa11.1, Oar_v3.1, Felis_catus_6.2 and CanFam3.1
Supplementary_files_format_and_content: valid read pairs text files
Supplementary_files_format_and_content: binned raw and normalized 2D contact matrices text files
Supplementary_files_format_and_content: TAD text files

organism: Felis catus

source_name: Adipose tissue

extract_protocol:
1 g adipose tissue were pulverized, and 37% formaldehyde was added to obtain a final concentration of 4% for chromatin cross-linking. Mixture were incubated at room temperature (20–25℃) for 30 minutes, then glycine was added to obtain a final concentration of 0.25 mol/L to quench the formaldehyde. The mixture was then centrifuge at 1,500×g for 10 min at room temperature, and sediment was added the lysis buffer and homogenized. Homogenate was centrifuge at 5,000×g for adipocytes sediment. Nuclei of formaldehyde-fixed adipose tissue were permeabilized and DNA was digested with 200 units of MboI (a 4-cutter restriction enzyme) for one hour at 37 ℃. The restriction fragment overhangs were filled and labbled by biotinylated nucleotides, then ligated in a small volume.
After crosslink reversal, ligated DNA was purified and sheared to a length of 300–500 bp, at which point ligation junctions were pulled down with streptavidin beads and prepped for Illumina NovaSeq 6000 sequencing.

value: A native breed of cat from Chengdu city

value: Back fat


title: Liver_WT_CON_2

city: Kamigyo-ku

first: Atsushi

last: Umemura

state: Kyoto

address: Kajii-cho, Kawaramachi-Hirokoji

country: Japan

institute: Kyoto Prefectural University of Medicine

hyb_protocol: We followed protocol of manual that is GeneChip® WT PLUS Reagent Kit User Manual.

scan_protocol: We followed manufacturer's protocol, and used GeneChip® Scanner 3000 7G.

data_processing: Data acquisition and normalization (SST-RMA) were used Affymetrix® Expression Console™ Software.

source_name: Mouse liver, wild type, control treatment

extract_protocol: We extracted and purified RNA using TRIzol (Invitrogen/Thermo Fisher Scientific) and Direct-zol RNA Miniprep Kit（ZYMO RESEARCH）

tag: gender

value: male

value: liver

value: wildtype


title: Liver_MUP_CON_1

source_name: Mouse liver, MUP type, control treatment

label_protocol: We followed protocol of manual that is GeneChip® WT PLUS Reagent Kit User Manual.

value: MUP-uPA Transgenic Mice


title: Liver_MUP_HNK_2

source_name: Mouse liver, MUP type, honokol treatment

value: honokiol


title: Liver_MUP_CON_2


title: Liver_WT_CON_1


title: Liver_MUP_HNK_1


title: Liver_WT_CON_3


title: Original, biological replicate 2

city: Dhaka

first: Miraj

middle: Kobad

last: Chowdhury

address: New Science Complex, Ramna

department: Genetic Engineering and Biotechnology

country: Bangladesh

institute: University of Dhaka

description: Gene expression data from collected cells

hyb_protocol: 15 μg of antisense RNA was used to generate sense DNA strand and fragmented. Then the stands were hybridized for 16 hr at 45oC on GeneChip Clariom S mouse Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.

scan_protocol: Arrays were scanned using the GeneChip 7000G Scanner.

data_processing: The data were analysed with Transcriptome analysis console 4.0 (TAC 4.0) with default analysis settings and RMA-LIMMA as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.

source_name: Middle ear epithelium

label_protocol: Biotinylated cRNA were prepared according to the standard ClariomeTM S assay protocol from 200 ng of total RNA (see manufacturer’s web site (https://www.ermofisher.com/order/catalog/product/902930#/902930)).

growth_protocol: Cell were cultured as described previously (doi: 10.1242/dmm.026658). Briefly, harvested cells were grown initially in mMEC plus (proliferation media) until confluent (day 0). Then the cells were cultured in mMEC plus (proliferation media) for air-liquid interface culture for up to day 7.

extract_protocol: Trizol extraction of total RNA was performed according to the manufacturer's instructions.

treatment_protocol: Harvested tissues were treated initially with 1.5 mg/ml pronase to collect cells. Cells were grown in media containing 10 μM of Rho kinase inhibitor, Y-27632 dihydrochloride to promote growth. PET transwell inserts were treated with 50 μg/ml rat-tail type I collagen to promote adherence.

value: Uncultured cells composed of a mixture of different cells from middle ear epithelium

value: Wild type

value: Adult


title: RNA-seq data of Pig replicate 5 sequenced by HiSeq X-ten

description:
TPM.pig.txt
BM-BC8-BPQ-LNC

data_processing:
Gene-level expression was estimated as transcripts per million (TPM) using the high-speed transcript quantification tool Kallisto (version 0.43.0).
Genome_build: Rnor_6.0, Sscrofa11.1
Supplementary_files_format_and_content: genes expression level (TPM) text file

organism: Sus scrofa

extract_protocol:
Total RNA was extracted using the RNeasy Mini Kit (Qiagen).
We used an rRNA depletion protocol (Ribo-Zero kit, Epicentre) coupled with the Illumina TruSeq stranded RNA-Seq library protocol to construct the RNA-Seq libraries. All libraries were quantified using the Qubit dsDNA High Sensitivity Assay Kit (Invitrogen) and sequenced on HiSeq X Ten (Illumina) platform.

value: Bama

value: Back fat/Upper layer of backfat

value: female


title: RNA-seq data of Pig replicate 6 sequenced by HiSeq X-ten

description:
TPM.pig.txt
BM-CC2-BPQ-LNC


title: RNA-seq data of Pig replicate 3 sequenced by HiSeq X-ten

description:
TPM.pig.txt
BM-BC5-BPQ-LNC


title: RNA-seq data of Pig replicate 2 sequenced by HiSeq X-ten

description:
TPM.pig.txt
BM-BC4-BPQ-LNC


title: RNA-seq data of Pig replicate 4 sequenced by HiSeq X-ten

description:
TPM.pig.txt
BM-BC7-BPQ-LNC


title: RNA-seq data of Pig replicate 1 sequenced by HiSeq X-ten

description:
TPM.pig.txt
BM-BC1-BPQ-LNC


title: RNA sequencing VL-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-VL-3

data_processing:
Sequence reads are aligned to pig reference genome (Sscrofa 11.1, GCA_000003025.6) by alignment tool STAR (version 2.5.3a).
The aligned reads of these samples were assembled using Cufflinks (version 2.1.1).
We developed and employed a previously reported computational methods to filter out library-specific background noise and predict the most likely isoforms from the assemblies of transcript fragments (transfrags).
After these filtering, we got high-quality assemblies containing reliable transcripts. These high-quality transcript assemblies were then subjected to TACO (a meta-assembly method with a robust solution for leveraging the vast RNA-seq data landscape for transcript structure prediction), leading to the construction of transcriptome maps.
We predicted coding potential by integrating two sources of evidence: (i) predictions from the alignment-free Coding Potential Calculator (CPC2)
LncRNAs were classified into locus biotypes based on both transcription localization and transcription direction of proximal PCG loci (5-kb distance cutoff) with FEElnc software
CIRCExplorer was used to retrieve RNA-seq reads that are mapped to back-splicing junction sites for circRNA prediction
Genome_build: Sscrofa11.1
Supplementary_files_format_and_content: PCG expression level (TPM) text file
Supplementary_files_format_and_content: lncRNA expression level (TPM) text file
Supplementary_files_format_and_content: TUCP expression level (TPM) text file
Supplementary_files_format_and_content: circRNA expression level (TPM) text file
Supplementary_files_format_and_content: gtf file

source_name: Vastus lateralis

value: Rongchang pig

value: Vastus lateralis


title: Liver_MUP_CON_3

value: control


title: RNA sequencing VL-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-VL-2


title: RNA sequencing VM-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-VM-2

source_name: Vastus medialis

value: Vastus medialis


title: RNA sequencing VM-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-VM-3


title: ALI at day 0, biological replicate 2

value: Submerged cultured primary middle ear epithelial cells


title: Liver_MUP_HNK_3


title: ALI at day 0, biological replicate 3


title: ALI at day 7, biological replicate 2

value: ALI cultured primary middle ear epithelial cells


title: ALI at day 0, biological replicate 1


title: Original, biological replicate 3


title: Original, biological replicate 1


title: ALI at day 7, biological replicate 1


title: ALI at day 7, biological replicate 3


title: RNA sequencing VM-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-VM-1


title: RNA sequencing VL-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-VL-1


title: RNA sequencing VI-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-VI-2

source_name: Vastus intermedius

value: Vastus intermedius


title: RNA sequencing VI-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-VI-1


title: RNA sequencing Uterus-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Uterus-3

source_name: Uterus

value: Uterus


title: RNA sequencing Uterus-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Uterus-1


title: RNA sequencing Uterus-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Uterus-2


title: RNA sequencing TM-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TM-3

source_name: Teres major

value: Teres major


title: RNA sequencing TM-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TM-2


title: RNA sequencing ULB-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ULB-1

source_name: Upper layer of backfat

value: Upper layer of backfat


title: RNA sequencing ULB-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ULB-2


title: RNA sequencing TFL-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TFL-2

source_name: Tensor fasciae latae

value: Tensor fasciae latae


title: RNA sequencing TRC-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TRC-2

source_name: Trapezius cervicis

value: Trapezius cervicis


title: RNA sequencing TRC-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TRC-1


title: RNA sequencing TIC-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TIC-2

source_name: Tibialis cranialis

value: Tibialis cranialis


title: RNA sequencing TIC-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TIC-3

value: Adult


title: RNA sequencing TB-M-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TB-M-1

source_name: Triceps brachii caput mediale

value: Triceps brachii caput mediale


title: RNA sequencing Testis-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Testis-3

source_name: Testis

value: Large white pig

value: Testis

value: Male


title: RNA sequencing TB-LO-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TB-LO-3

source_name: Triceps brachii caput longum

value: Rongchang pig

value: Triceps brachii caput longum

value: female


title: RNA sequencing TB-LO-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TB-LO-2


title: RNA sequencing Testis-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Testis-2


title: RNA sequencing TFL-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TFL-1


title: RNA sequencing TB-LO-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TB-LO-1


title: RNA sequencing VI-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-VI-3


title: RNA sequencing ULB-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ULB-3


title: RNA sequencing TB-LA-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TB-LA-1

source_name: Triceps brachii caput laterale

value: Triceps brachii caput laterale


title: RNA sequencing TA-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TA-3

source_name: Transversus abdominis

value: Transversus abdominis


title: RNA sequencing TFL-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TFL-3


title: RNA sequencing Testis-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Testis-1


title: RNA sequencing TB-M-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TB-M-3


title: RNA sequencing TIC-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TIC-1


title: RNA sequencing TM-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TM-1


title: RNA sequencing TB-M-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TB-M-2


title: RNA sequencing TA-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TA-2


title: RNA sequencing SUB-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SUB-3

source_name: Subscapularis

value: Subscapularis


title: RNA sequencing TA-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TA-1


title: RNA sequencing ST-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ST-3

source_name: Semitendinosus

value: Semitendinosus


title: RNA sequencing Stomach-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Stomach-1

source_name: Stomach

value: Stomach


title: RNA sequencing ST-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ST-1


title: RNA sequencing ST-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ST-2


title: RNA sequencing SUB-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SUB-2


title: RNA sequencing SSP-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SSP-2

source_name: Supraspinatus

value: Supraspinatus


title: RNA sequencing SUB-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SUB-1


title: RNA sequencing SSP-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SSP-1


title: RNA sequencing SSP-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SSP-3


title: RNA sequencing Spleen-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Spleen-2

source_name: Spleen

value: Spleen


title: RNA sequencing SOL-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SOL-3

source_name: Soleus

value: Soleus


title: RNA sequencing SP-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SP-2

source_name: Splenius

value: Splenius


title: RNA sequencing Spleen-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Spleen-3

value: Adult


title: RNA sequencing SP-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SP-1


title: RNA sequencing SP-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SP-3


title: RNA sequencing TB-LA-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-TB-LA-2


title: RNA sequencing SOL-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SOL-2


title: RNA sequencing SOL-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SOL-1


title: RNA sequencing Small-Intestine-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Small-Intestine-3

source_name: Small Intestine

value: Small Intestine


title: RNA sequencing Small-Intestine-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Small-Intestine-2


title: RNA sequencing SM-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SM-3

source_name: Semimembranosus

value: Semimembranosus


title: RNA sequencing Spleen-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Spleen-1


title: RNA sequencing SAR-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SAR-3

source_name: Sartorius

value: Sartorius


title: RNA sequencing Small-Intestine-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Small-Intestine-1


title: RNA sequencing SAR-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SAR-1


title: RNA sequencing Right-Ventricle-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Right-Ventricle-3

source_name: Right Ventricle

value: Right Ventricle


title: RNA sequencing SM-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SM-2

value: Rongchang pig


title: RNA sequencing SM-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SM-1


title: RNA sequencing Right-Atrium-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Right-Atrium-2

source_name: Right Atrium

value: Right Atrium


title: RNA sequencing SAR-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-SAR-2

value: female


title: RNA sequencing Right-Ventricle-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Right-Ventricle-2


title: RNA sequencing Right-Atrium-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Right-Atrium-1


title: RNA sequencing Right-Atrium-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Right-Atrium-3


title: RNA sequencing RF-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-RF-3

source_name: Rectus femoris

value: Rectus femoris


title: RNA sequencing RF-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-RF-1


title: RNA sequencing RF-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-RF-2


title: RNA sequencing RHO-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-RHO-1

source_name: Rhomboideus

value: Rhomboideus


title: RNA sequencing RA-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-RA-3

source_name: Rectus abdominis

value: Rectus abdominis


title: RNA sequencing Retina-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Retina-1

source_name: Retina

value: Crossbred of  Meishan(paternal)Tibetan(maternal)

value: Retina

value: Neonatal


title: RNA sequencing Retina-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Retina-2


title: RNA sequencing RA-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-RA-2


title: RNA sequencing RA-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-RA-1


title: RNA sequencing RAD-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-RAD-3

source_name: Retroperitoneal adipose

value: Retroperitoneal adipose


title: RNA sequencing PS-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-PS-2

source_name: Pectoralis superficialis

value: Pectoralis superficialis


title: RNA sequencing PS-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-PS-1


title: RNA sequencing PP-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-PP-3

source_name: Pectoralis profundus

value: Pectoralis profundus


title: RNA sequencing PP-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-PP-2

value: Adult


title: RNA sequencing Right-Ventricle-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Right-Ventricle-1


title: RNA sequencing PP-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-PP-1


title: RNA sequencing RHO-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-RHO-2


title: RNA sequencing PM-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-PM-1

source_name: Psoas major

value: Psoas major


title: RNA sequencing PM-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-PM-2


title: RNA sequencing PM-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-PM-3


title: RNA sequencing PK15 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-PK15

source_name: Iliac endothelial cells

value: Iliac endothelial cells


title: RNA sequencing Ovary-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Ovary-3

source_name: Ovary

value: Ovary


title: RNA sequencing Ovary-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Ovary-1


title: RNA sequencing PEIC biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-PEIC

source_name: Kidney epithelial cells

value: Kidney epithelial cells


title: RNA sequencing OEA-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-OEA-2

source_name: Obiliquus extensor abdominis

value: Rongchang pig

value: Obiliquus extensor abdominis


title: RNA sequencing RAD-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-RAD-2

value: female


title: RNA sequencing Ovary-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Ovary-2


title: RNA sequencing OEA-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-OEA-1


title: RNA sequencing OEA-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-OEA-3


title: RNA sequencing MAS-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-MAS-2

source_name: Masseter

value: Masseter


title: RNA sequencing MAD-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-MAD-1

source_name: Mesenteric adipose

value: Mesenteric adipose


title: RNA sequencing Lung-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Lung-2

source_name: Lung

value: Lung


title: RNA sequencing Lung-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Lung-1


title: RNA sequencing MAS-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-MAS-1


title: RNA sequencing Liver-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Liver-2

source_name: Liver

value: Liver


title: RNA sequencing MAD-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-MAD-3


title: RNA sequencing Liver-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Liver-1


title: RNA sequencing LIN-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-LIN-1

source_name: Lingualis

value: Lingualis


title: RNA sequencing Lung-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Lung-3


title: RNA sequencing Liver-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Liver-3


title: RNA sequencing LIN-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-LIN-2


title: RNA sequencing Left-Ventricle-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Left-Ventricle-3

source_name: Left Ventricle

value: Left Ventricle


title: RNA sequencing Left-Ventricle-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Left-Ventricle-2


title: RNA sequencing Left-Ventricle-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Left-Ventricle-1


title: RNA sequencing Left-Atrium-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Left-Atrium-3

source_name: Left Atrium

value: Left Atrium


title: RNA sequencing LDM-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-LDM-1

source_name: Longissimus dorsi muscle

value: Longissimus dorsi muscle


title: RNA sequencing LD-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-LD-1

source_name: Latissimus dorsi

value: Latissimus dorsi


title: RNA sequencing Left-Atrium-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Left-Atrium-1

value: Adult


title: RNA sequencing LD-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-LD-2


title: RNA sequencing Kidney-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Kidney-3

source_name: Kidney

value: Kidney


title: RNA sequencing LDM-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-LDM-2


title: RNA sequencing Kidney-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Kidney-2


title: RNA sequencing ISP-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ISP-1

source_name: Infraspinatus

value: Infraspinatus


title: RNA sequencing ILB-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ILB-3

source_name: Inner layer of backfat

value: Inner layer of backfat


title: RNA sequencing ILB-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ILB-2


title: RNA sequencing GRA-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GRA-3

source_name: Gracillis

value: Gracillis


title: RNA sequencing ISP-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ISP-2

value: Rongchang pig


title: RNA sequencing GRA-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GRA-2


title: RNA sequencing ILB-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ILB-1


title: RNA sequencing GRA-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GRA-1


title: RNA sequencing GOM-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GOM-2

source_name: Greater omentum

value: Greater omentum


title: RNA sequencing GM-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GM-3

source_name: Gluteus medius

value: Gluteus medius

value: female


title: RNA sequencing GOM-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GOM-3


title: RNA sequencing GAS-M-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GASM-3

source_name: Gastrocnemius-mediale

value: Gastrocnemius-mediale


title: RNA sequencing GM-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GM-2


title: RNA sequencing GOM-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GOM-1


title: RNA sequencing GAS-M-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GASM-2


title: RNA sequencing GM-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GM-1


title: RNA sequencing GAS-L-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GASL-3

source_name: Gastrocnemius-laterale

value: Gastrocnemius-laterale


title: RNA sequencing GAS-M-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GASM-1


title: RNA sequencing GAS-L-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GASL-2


title: RNA sequencing FDS-H-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-FDS-H-3

source_name: Flexor digitorum superficialis

value: Flexor digitorum superficialis


title: RNA sequencing Kidney-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Kidney-1


title: RNA sequencing ISP-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ISP-3


title: RNA sequencing FDS-H-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-FDS-H-2


title: RNA sequencing GAS-L-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-GASL-1


title: RNA sequencing FDS-F-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-FDS-F-1


title: RNA sequencing FDS-F-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-FDS-F-2


title: RNA sequencing FDS-H-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-FDS-H-1


title: RNA sequencing FDP-F-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-FDP-F-3

source_name: Flexor digitorum profundus

value: Flexor digitorum profundus


title: RNA sequencing FDP-F-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-FDP-F-2


title: RNA sequencing FDP-H-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-FDP-H-3


title: RNA sequencing FDP-F-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-FDP-F-1


title: RNA sequencing EDL-H-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-EDL-H-3

source_name: Extensor digitorum lateralis

value: Extensor digitorum lateralis


title: RNA sequencing EDL-H-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-EDL-H-2


title: RNA sequencing EDL-F-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-EDL-F-3


title: RNA sequencing EDL-H-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-EDL-H-1


title: RNA sequencing EDL-F-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-EDL-F-2


title: RNA sequencing EDL-F-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-EDL-F-1


title: RNA sequencing DSP-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-DSP-2

source_name: Deltoideus scapular part

value: Deltoideus scapular part


title: RNA sequencing DAP-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-DAP-3

source_name: Deltoideus acromial part

value: Deltoideus acromial part


title: RNA sequencing EDC-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-EDC-2

source_name: Extensor digitorum communis

value: Extensor digitorum communis


title: RNA sequencing DSP-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-DSP-1

value: Adult


title: RNA sequencing FDP-H-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-FDP-H-1


title: RNA sequencing EDC-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-EDC-1


title: RNA sequencing DAP-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-DAP-2


title: RNA sequencing DSP-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-DSP-3


title: RNA sequencing DAP-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-DAP-1


title: RNA sequencing EDC-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-EDC-3


title: RNA sequencing Colon-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Colon-3

source_name: Colon

value: Colon


title: RNA sequencing Colon-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Colon-2


title: RNA sequencing Colon-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Colon-1


title: RNA sequencing Cerebellum-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Cerebellum-3

source_name: Cerebellum

value: Cerebellum


title: RNA sequencing Cerebellum-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Cerebellum-1


title: RNA sequencing Cerebellum-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-Cerebellum-2


title: RNA sequencing BF-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-BF-3

source_name: Biceps femoris

value: Biceps femoris


title: RNA sequencing BRA-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-BRA-3

source_name: Brachiocephalicus

value: Brachiocephalicus


title: RNA sequencing BF-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-BF-2

value: Rongchang pig


title: RNA sequencing BRA-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-BRA-1


title: RNA sequencing BB-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-BB-1

source_name: Biceps brachii

value: Biceps brachii


title: RNA sequencing BRA-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-BRA-2


title: RNA sequencing ADD-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ADD-3

source_name: Adductores

value: Adductores


title: RNA sequencing BF-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-BF-1

value: female


title: RNA sequencing ADD-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ADD-2


title: RNA sequencing ADD-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ADD-1


title: RNA sequencing ASA-1 biological replicate 1

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ASA-1

source_name: Abdominal subcutaneous adipose

value: Abdominal subcutaneous adipose


title: HEK293T control 2

city: Bron

first: Hector

last: Hernandez-Vargas

state: Rhone

address: 36 bis Rue de la Batterie

country: France

institute: Genomics Consulting

description: mtDNA enriched

data_processing:
Reads were basecalled with GUPPY version 4.0.15 (ONT).
Medaka (https://github.com/nanoporetech/medaka) was used to extract base modification values (i.e. 5mCpG)
Genome_build: GRCh38/hg38
Supplementary_files_format_and_content: tsv. format. Column names: ‘ref.name’, ‘position’, ‘motif’, ‘fwd.meth.count’, ‘rev.meth.count’, ‘fwd.canon.count’, and ‘rev.canon.count’.  fwd./rev. indicate counts on the two DNA strands and meth./canon. indicate counts for methylated and canonical bases.

source_name: kidney cell line

growth_protocol: HEK293T, immortal cells derived from embryonic kidney were grown in tissue culture dishes (Falcon, Becton Dickinson) and cultured in DMEM 1X media containing 1% Penicillin/Streptomycin, 1% sodium pyruvate, 1% L-glutamine, 1% non-essential amino-acids, all from Life Technologies, and 10% fetal bovine serum (Eurobio Abcys).

extract_protocol:
Subcellular fractionation was performed as previously described (Arnoult et al., 2003) with some modifications. Briefly, cells were washed with PBS, harvested by scraping and centrifuged at 1000 g for 5 min. The pellet was re-suspended in buffer containing 210 mM sorbitol, 70 mM sucrose, 1 mM EDTA, 10 mM HEPES and 0.1% BSA (Sigma) before grinding with a Dounce Homogenizer (Wheaton, USA) with a loose and tight pestle (100 strokes with each pestle). Cells were observed under microscope (Axiovert 40C, Zeiss) with trypan blue dye to assess cell membrane disruption followed by centrifugation at 500 g for 5 min at 4 °C. The supernatant was collected before centrifugation at 10 000 g for 30 min at 4 °C. DNA extraction (Nucleospin Tissue, Macherey-Nagel) was performed on the resulting pellet according to manufacturer instructions. mtDNA was digested using BamH1 HF (New England BioLabs) in order to linearize mtDNA genome.
400ng of DNA from each sample was barcoded and multiplexed using the Nanopore Rapid Barcoding Sequencing kit (SQK-RBK004) according to manufacturer's instructions.
Sequencing was conducted with a Minion sequencer on ONT 1D flow cells (FLO-min106) with protein pore R9.4 1D chemistry for 48h.

treatment_protocol: HEK293T cells were treated ydrogen peroxide (H2O2) (Sigma-Aldrich, 216763) at a concentration of 500 μM for 2 hours, alone or in combination with 5mM N-acetyl-cyteine (NAC) (Sigma-Aldrich, A7250). When using NAC, cells were pre-treated for 2hrs with 5mM NAC.

value: embryonic kidney


title: HEK293T control 3

description: mtDNA enriched


title: HEK293T H2O2-treated 1

description: mtDNA enriched


title: HEK293T NAC-rescued 2

description: mtDNA enriched


title: HEK293T H2O2-treated 2

description: mtDNA enriched


title: liver progenitor cell, differentiated stage, replicate 3

description: mtDNA enriched

source_name: hepatocyte

growth_protocol: HepaRG cells were cultured in Williams media enriched with 10% Fetal calf serum clone II, 1% 366 Penicillin/Streptomycin, L-glutamine (2mM), insulin (5μg/mL) and hydrocortisone (25μg/mL).

treatment_protocol: Proliferative HepaRGs were taken before reaching 50% confluence and differentiated as previously described (Ancey et al., 2017; Cerec et al., 2007; Rodríguez-Aguilera et al., 2020).

value: liver progenitor cell

tag: Stage

value: differentiated stage


title: HEK293T NAC-rescued 3

description: mtDNA enriched


title: liver progenitor cell, differentiated stage, replicate 2

description: mtDNA enriched


title: liver progenitor cell, differentiated stage, replicate 1

description: mtDNA enriched


title: liver progenitor cell, differentiated, fully methylated control

description: mtDNA enriched


title: liver progenitor cell, differentiated, fully unmethylated control

description: mtDNA enriched


title: RNA sequencing BB-2 biological replicate 2

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-BB-2


title: RNA sequencing ASA-3 biological replicate 3

description:
pig_PCG.all_exp_tpm_gene.txt
pig_lncRNA.all_exp_tpm_gene.txt
pig_TUCP.all_exp_tpm_gene.txt
pig_circRNA.all_exp_tpm_gene.txt
analysis.gtf
Pig-ASA-3


title: liver progenitor cell, proliferative stage

description: mtDNA enriched

source_name: liver progenitor

value: proliferative stage


title: NCI-H520_replicate02

city: Freiburg im Breisgau

first: Jagriti

last: Pal

state: Baden Wurttemburg

address: Breisacher Str. 115

department: ZTZ

institute: Universitatsklinikum, Freiburg

data_processing:
Quality assessment of the reads was performed using the pipeline EvalRSeq. This checks for rRNA contamination and computes quality metrics.
The adapter sequence was removed and the reads were sorted for a length between 50 and 126 bp.
The reads were uniquely aligned to the human genome GRCh38, allowing for up to two mismatches, using STAR mapper.
Gene expression was determined by calculating FPKM using easyRNASeq and Ensembl version 75.
Genome_build: GRCh38
Supplementary_files_format_and_content: NSCLC_panel_RNAseq_FPKM_all.csv

growth_protocol: All cell lines were grown in RPMI-1640 medium containing 10% Fetal Calf Serum and maintained in a humidified chamber at 37°C and 5% CO2.

extract_protocol:
Whole-cell RNA was isolated using RNeasy Mini columns (Qiagen).
Total RNA (5 μg) from each sample were depleted of rRNA using the Ribo-Zero Gold rRNA Removal Kit for human, mouse and rat RNA (Illumina). 20 ng of RNA input was used to generate the RNA-seq libraries using the Agilent Sure Select Strand Specific RNA Library Prep for Illumina Multiplex Sequencing Version C.0 (Illumina).
The single-stranded RNA library was sequenced on a HiSeq 2000 V4 (Illumina) with 150 bp paired-end reads.

value: Lung

value: NSCLC


title: NCI-H460_replicate02


title: HEK293T H2O2-treated 3

description: mtDNA enriched


title: Calu-1_replicate02


title: IMR-90_replicate03

value: Fibroblast


title: IMR-90_replicate01


title: IMR-90_replicate02


title: HEK293T control 1

description: mtDNA enriched


title: NCI-H1703_replicate02


title: WI-38_replicate02


title: WI-38_replicate03


title: BEAS-2B_replicate03

value: Epithelial (virus immortalized)


title: BEAS-2B_replicate02


title: WI-38_replicate01


title: Day 2_JIB-04

city: Pretoria

first: Jessica

middle: I

last: Connacher

address: Lynnwood road, Hatfield

country: South Africa

institute: University of Pretoria

description: NF54 gametocytes treated on day 2 with 5 µM JIB-04 and sampled 24 h after treatment

scan_protocol: Slides were scanned on an Agilent G2600D Microarray Scanner [5 µm resolution at  532 nm (Cy3) and 633 nm (Cy5)],array images were quantified and signal intensities subsequently extracted using the GE2_1100_Jul11_no_spikein protocol with Agilent Feature Extraction Software (v 11.5.1.1).

data_processing: Agilent Feature Extraction Software (v 11.5.1.1) was used for background subtraction

organism: Plasmodium falciparum NF54

source_name: JIB-04 Day 2 RNA

growth_protocol: Gametocyte cultures were generated as described previously (Reader et al., 2015, DOI: 10.1186/s12936-1015-0718-z) P. falciparum (NF54) asexual parasites [maintained in human erythrocytes (5% haematocrit) in complete culture medium (RPMI 1640 (Sigma-Aldrich) supplemented with 25 mM HEPES, 20 mM glucose, 200 μM hypoxanthine, 0.2% (w/v) sodium bicarbonate, 24 μg/ml gentamycin and 0.5% (w/v) AlbuMAX II) at 37°C and under hypoxic conditions (90% N2, 5% O2, and 5% CO2)] were synchronised (>95% ring stage parasites) using 5% D-sorbitol for two consecutive replication cycles and were then subjected to glucose starvation and a reduced haematocrit (4%) to induce gametocyte commitment. N-acetylglucosamine (50 mM) supplemented media was changed daily from day 1 of development to remove residual asexual parasites.

extract_protocol: Following treatment, gametocytes were isolated from host erythrocytes using 0.1% (w/v) saponin (10 min, 4°C)

treatment_protocol: Gametocytes were treated with 5 µM JIB-04 (Cayman Chemicals) on day 2 and day 3 of development and  incubated at  37˚C without agitation in parallel with untreated control gametocyte samples for 24 h. Gametocytes (1.5 to 2.5% gametocytaemia)  were then isolated from host erythrocytes using 0.01% (w/v) saponin, washed three times with 1x PBS and stored at -80˚C for further use.

tag: time after treatment

value: 24 hours

source_name: Reference pool


title: Day 3_JIB-04

description: NF54 gametocytes treated on day 3 with 5 µM JIB-04 and sampled 24 h after treatment

source_name: JIB-04 Day 3 RNA


title: Day 3_UT

description: NF54 day 3 gametocytes without drug perturbation, corresponding control sample to Day 3_JIB-04

source_name: Untreated Day 3 RNA

value: 24 hours (No treatment)


title: Day 2_UT

description: NF54 day 2 gametocytes without drug perturbation, corresponding control sample to Day 2_JIB-04

source_name: Untreated Day 2 RNA


title: SK-LU-1_replicate01

tag: tissue

value: Adenocarcinoma


title: SK-LU-1_replicate03


title: BEAS-2B_replicate01


title: SK-LU-1_replicate02


title: RERF-LC-MS_replicate03

source_name: RERF-LC-MS

value: RERF-LC-MS


title: Zebrafish_lens

city: Hongo, Bunkyo-ku

first: Hideaki

last: Morishita

state: Tokyo

department: Department of Biochemistry and Molecular Biology

institute: The University of Tokyo

description: Gene expression in the lens

hyb_protocol: cRNA was hybridized to a 44K 60-mer oligomicroarray (D. rerio (Zebrafish) Oligo Microarray V3 ; Agilent Technologies) according to the manufacturer's instructions.

scan_protocol: The hybridized microarray slides were scanned using an Agilent scanner. The relative hybridization intensities and background hybridization values were calculated using Feature Extraction Software version 9.5.1.1 (Agilent Technologies).

data_processing: The scanned images were analyzed with Feature Extraction Software 9.5.1.1 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities.  The raw signal intensities and flags for each probe were calculated from the hybridization intensities and spot information according to the procedures recommended by Agilent Technologies using the Flag criteria in the GeneSpring Software. The raw signal intensities of all samples were normalized by the quantile algorithm with the Bioconductor.

organism: Danio rerio

source_name: Zebrafish, 10dpf, lens

label_protocol: cRNA was amplified and labelled using a Low input Quick Amp Labelling Kit (Agilent Technologies).

extract_protocol: Total RNA was isolated from tissues using TRIzol Reagent (invitrogen) and purified using SV Total RNA Isolation System (Promega)

value: lens

value: larval stage


title: RERF-LC-MS_replicate02


title: RERF-LC-MS_replicate01


title: NCI-H292_replicate02


title: Zebrafish_body without eyes

description: Gene expression in the body without eyes

source_name: Zebrafish, 10dpf, body without eyes

value: body without eyes


title: PC9_replicate01


title: PC9_replicate02


title: NCI-H838_replicate03


title: HEK293T NAC-rescued 1

description: mtDNA enriched


title: NCI-H522_replicate02


title: NCI-H820_replicate01


title: NCI-H522_replicate01


title: NCI-H520_replicate01


title: NCI-H820_replicate02


title: NCI-H522_replicate03


title: NCI-H820_replicate03


title: NCI-H838_replicate01


title: NCI-H460_replicate01


title: NCI-H441_replicate03


title: NCI-H441_replicate01


title: NCI-H441_replicate02


title: NCI-H3122_replicate03


title: NCI-H3122_replicate01


title: PC9_replicate03


title: NCI-H292_replicate01


title: NCI-H23_replicate03