title: PNH4_CD34positive_PNH-type_GEM

description: 10x Genomics


title: p53 knockout_Initial_T0

status: Public on Mar 10 2026

type: SRA

city: New York

first: Bic

last: MSKCC

state: NY

address: 1275 York Ave.

country: USA

institute: Memorial SLoan-Kettering Cancer Center

description: Library name: s_P53_T0

library_source: genomic

data_processing:
fastx-toolkit (0.0.13) is used to find the sequence that appears in the vector 5′ to all sgRNA sequences, as well as grab the 20nt sgRNA sequence, and count how many occurrences that sequence was found in each sample. (fastx_reverse_complement -Q33, fastx_clipper -M 20 -c -a CGGTGTTTCGTCCTTTCCACAAG -Q33, fastx_reverse_complement, fastx_trimmer -p 1 -q 20, fastx_collapser, fasta_formatter -t )
R was then used to map back to a reference file of all possible sgRNAs present in the library. Git repo with code used for data processing: https://github.com/soccin/ScreenSEQ/tree/proj/11458
Assembly: GRCh38.p14
Supplementary files format and content: counts files are excels with columns containing sgRNA sequence, gene name, probe ID, what library reaction the sgRNA is from and counts for the samples.
Library strategy: CRISPR Screen

molecule: genomic DNA

organism: Homo sapiens

growth_protocol: hTERT-RPE1 cells were cultured in DME/F12 (1:1) +15mM HEPES + 2.4mM Glutamate media, supplemented with 10% FBS and 1% penicillin/streptomycin. Puromycin selection was done at 10mg/mL for 3 days. Throughout the screen cells were split every 4-5 days depending on reaching confluency, re-seeding a minimum of 10 million cells. Multilayer flasks were used to streamline culture work.

extract_protocol:
Genomic DNA was isloated using QIAGEN DNA Blood Maxi kit protocol, from the BRAOD institute
gRNAs were amplified with barcoded primers following the “PCR of sgRNAs, shRNAs, and ORFs from genomic DNA for Illumina sequencing”  protocol, with the following P7 barcode primers for the indicated libraries. s_USP28_T0 : A01 (P7_MT01) s_USP28_T4 : A02 (P7_MT02) s_WT-T4 : A01 (P7_MT01) s_P53-T4 : A02 (P7_MT02) s_WT-T0 : A07 (P7_MT07) s_P53-T0 : A08 (P7_MT08)

tag: cell line

tag: genotype


title: PNH11_CD34positive_Wild-type_GEM

city: Bethesda

first: Shouguo

last: Gao

state: MD

address: 9000 Rockville Pike

department: NHLBI

institute: National Institutes of Health

description: 10x Genomics

library_source: transcriptomic single cell

data_processing:
The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v7.1.0 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
Paired-end reads were mapped to the hg38 genome with cellranger for gene-level read counts
Sample demultiplexing, barcode processing, alignment, filtering, UMI counting were performed using the cellranger analysis pipeline.
Data normalization, dimension reduction, and differential expression analysis were performed using R and the Seurat R package. Cells were clustered with PhenoGraph.
Assembly: hg38
Supplementary files format and content: Lineposicount.Rdata: read count matrix for BM
Supplementary files format and content: Lineposimeta.csv: cellannotationLineposicount
Supplementary files format and content: CD34count.Rdata: read count matrix for BM
Supplementary files format and content: CD34meta.csv: cellannotationCD34count

molecule: total RNA

source_name: Human bone marrow

extract_protocol: Libraries of gene expression (Lineage+ mature cells and Lineage-CD34+HSPCs) for patients and healthy donors were generated using Genomics Chromium Single Cell 3' Solution Kit from 10XGenomics v3.1.

tag: subject

tag: disease state

value: paroxysmal nocturnal hemoglobinuria (PNH)

tag: tissue

value: Human bone marrow

tag: cell type

value: FACS sorted Linjeage-CD34+ bone marrow

tag: Sex

value: Male

tag: age

tag: response at_primary_end_point


title: WT_Initial_T0

description: Library name: s_WT_T0

value: Wildtype


title: LC25_FB_2_ZT04

city: Chicago

first: Marta

last: Iwanaszko

state: IL

address: 303 E. Superior Street, Simpson Querrey 7th Floor,

department: Biochemistry and Molecular Genetics

institute: Northwestern University Feinberg School of Medicine

description: Diet Restriction 25C replicate 2 ZT04

library_source: transcriptomic

data_processing:
Transcripts were quantified using kallisto ver.0.44.0
Quantified transcripts were summed to gene level using tximport (R library)
Quality control assessment was performed using FastQC
Genome_build: FlyBase_r6.14
Supplementary_files_format_and_content: Comma-delimited text file including TPMs for all samples
Supplementary_files_format_and_content: Comma-delimited text file including estimated counts for all samples

organism: Drosophila melanogaster

source_name: Abdominal Fat Body (including oenocytes and epidermis)

growth_protocol: All the flies used for experiments were raised on a standard yeast-cornmeal-molasses based diet under a light-dark (LD) 12:12h cycle

extract_protocol:
At every 2 hours, flies were directly dissected without dry ice to harvest fat tissues in the abdomen. Pinned flies were cut to remove organs in the abdomen (intestine, ovaries, malpighian tubules, etc). Fat tissues attached to epidermis was collected. Fat body from ~ 10 flies were harvested within 10 minutes for each time point of RNA-Seq analysis.
RNA libraries were prepared for sequencing using standard Illumina protocols

treatment_protocol: Young mated female flies (~ 3 day old) were entrained under either DR diet (5SY) or control diet (15SY) for 5 days in 12L:12D cycles at 25°C.

tag: strain

value: w1118 (iso31 / Bloomington stock #5905)

value: female

tag: mating status

value: mated

value: young flies (~8 d old)

tag: temperature

tag: diet condition

value: Diet Restriction

tag: zt

tag: replicate


title: Primary microglia, vehicle, 4 h, replicate 2

city: Nantong

first: Xia

last: Li

state: Jiangsu

address: No. 9 Seyuan Road

country: China

institute: Nantong University

description:
Library name: Con2
Column name in all_sample_raw_count.tsv: Con2

data_processing:
Raw reads were firstly processed using fastp (v0.22.0) and the low  quality reads were removed to obtain the clean reads. The clean reads were mapped to the  reference genome Rnor_6.0.99 using HISAT2 (v2.1.0). FPKM of each gene was calculated and the read counts of each gene were obtained by featureCounts.
Assembly: Rnor_6.0.99
Supplementary files format and content: Processed counts of all samples are provided in the file all_sample_raw_count.tsv

organism: Rattus norvegicus

source_name: brain

growth_protocol: DMEM/F12 complete medium

extract_protocol:
Total RNA was extracted from primary microglia, and its integrity was determined using agarose gel electrophoresis. The concentration of RNA was accurately determined with a NanoDrop spectrophotometer.
Magnetic beads coated with oligo-dT were employed to isolate mRNA from total RNA. The captured mRNA was fragmented, and the first and second strands of cDNA were then synthesized using reverse transcriptase. The cDNA fragments were processed using an end-repair reaction after the addition of a single “A” base, followed by adapter ligation. These ligation products were purified and then amplified by PCR to generate the final cDNA library, which was further purified with magnetic beads. After library preparation was complete, the concentration was detected with a Qubit instrument, and the length of the library fragments was detected with an Agilent fragment analyzer to ensure quality.

treatment_protocol: The primary cultured microglia were randominzed into three groups: 1) control: only the vehicle were added in the culture medium; 2) LPS: 100 ng/mL LPS was added in the culture medium for 4 hours. 3) LPS+Ar:  Argon mixed gas (74% Ar + 21% O₂ + 5% CO₂) was administered immediately after 100 ng/mL LPS was added to the culture medium, and the exposure was sustained for 3 h. Cells were collected for RNA isolation 4 hours after LPS administration.

value: brain

value: primary cultured microglia

value: wildtype festus rat

tag: treatment

value: vehicle


title: PNH11_Linpositive_Wild-type_GEM

description: 10x Genomics

value: FACS sorted Linjeage+ bone marrow


title: LC25_FB_2_ZT02

description: Diet Restriction 25C replicate 2 ZT02

value: Abdominal Fat Body (including oenocytes and epidermis)


title: p53 knockout_End_T4

description: Library name: s_P53_T4


title: WT_End_T4

description: Library name: s_WT_T4


title: HC25_FB_ZT24

description: Control 25C replicate 1 ZT24

value: Control


title: PNH11_CD34positive_PNH-type_GEM

description: 10x Genomics

value: paroxysmal nocturnal hemoglobinuria (PNH)


title: H520, shRNA-PARN, rep6

type: RNA

city: Trento

first: Michela

middle: A.

last: Denti

address: Via Sommarive 9

department: Department of Cellular, Computational and Integrative Biology

country: Italy

institute: University of Trento

description: NCI-H520 cells, transfected with shRNA_PARN, 72 hrs, replicate 6

hyb_protocol: Hybridization was performed in miRNA Hybridization Solution (Agilent 5190-0456) for 20 hours ar 55°C

scan_protocol: Hybridized microarray slides were scanned with an Agilent DNA Microarray Scanner G2505C using one color scan setting

data_processing: Data was analyzed with the Agilent ScanControl version 8.1.3 software. The scanned TIFF images were background corrected using the Agilent Feature Extraction Software version 10.7.7.1. The raw data were normalized to the 75th percentile signal intensity.

label_protocol: 100 nanograms of total RNA sample was labelled using the miRNA Microarray System labelling kit V2 (Agilent 5190-0456) following manufacturer's instructions

growth_protocol: Human NCI-H520 cell line was obtained from American type culture collection (ATCC, Manassas, VA, USA) and regularly tested for mycoplasma. Cells were routinely maintained in MEM and RPMI-1640 respectively (Biosera), supplemented with 10 % fetal bovine serum (FBS, Biosera) in a humidified atmosphere of 5 % CO2 at 37 °C.

extract_protocol: Total RNA was extracted from cells using Trizol (Invitrogen) and treated with Turbo DNA-free™ Kit (Applied Biosystem, Thermo-Fisher Scientific).

treatment_protocol: NCI-H520 cells grown into 6-well plates were transfected for 72 h, with 6 μg plasmid DNA containing shRNAs sequences designed to silence PARN  (MISSION® shRNA, SIGMA.: PARN (NM_002582)) or shRNA with no homology to known gene sequences as negative control (SHC016), using cationic liposomes (Xfect, Clontech) according to manufacturer’s instructions.  Puromycin selection (6 μg/mL) was performed 12 h after transfection according to the manufacturer.

value: lung squamous cell carcinoma cell line

tag: transfection

value: PARN knockdown


title: HC25_FB_ZT22

description: Control 25C replicate 1 ZT22


title: PNH11_Linpositive_PNH-type_GEM

description: 10x Genomics

value: Human bone marrow

value: Male


title: PNH10_Linpositive_Wild-type_GEM

description: 10x Genomics


title: kd-siRNA-NUTM2BAS1_2

city: Frankfurt

first: Simonida

last: Zehr

state: Hesse

address: Theodor-Stern-Kai 7

department: Institute for Cardiovascular Physiology

country: Germany

institute: Goethe University, Frankfurt am Main, Germany,

description: Library name: Sample 11

data_processing:
The resulting raw reads were assessed for quality, adapter content and duplication rates with FastQC. Trimmomatic version 0.39 was employed to trim reads after a quality drop below a mean of Q20 in a window of 10 nucleotides. Only reads between 30 and 150 nucleotides were cleared for further analyzes. Trimmed and filtered reads were aligned versus the Ensembl human genome version hg38 (release 99) using STAR 2.7.3a with the parameter “–outFilterMismatchNoverLmax 0.1” to increase the maximum ratio of mismatches to mapped length to 10. The number of reads aligning to genes was counted with featureCounts 1.6.5 tool from the Subread package. Only reads mapping at least partially inside exons were admitted and aggregated per gene. Reads overlapping multiple genes or aligning to multiple regions were excluded
Differential gene expression analysis was performed using DESeq2 (v1.40.2), with the respective donor per sample included in the experimental design.
Assembly: hg38  (Ensembl human genome version 99)
Supplementary files format and content: ext684-exp1-rnaseq-1.xlsx.  Differential Expression analysis for all replicates (Worksheets "overview", "bigmatrix", "gso", "gso_bar", "gsea", "matrix") and contrasts / enrichments when comparing individual knockdown conditions

source_name: HUVEC

growth_protocol: For the knockdown of lncRNAs with small interfering RNA (siRNA), HUVEC were seeded at 15,000 cells/cm2 one day before transfection.

extract_protocol:
To isolate nuclear extract, medium was aspirated and cells were washed once with cold Hank’s solution. Harvesting was performed by scraping cells twice in 500 µL Hank’s solution and centrifuging (1 min, 13 000 rpm at 4 ◦C). The supernatant was removed and the pellet resuspended in 600 µL buffer A. After incubation on ice for 15 minutes, 45 µL 10 % Nonidet (Sigma Aldrich) were added to lyse the cytosolic membrane, the cells were vortexed for 10 seconds and centrifuged (1 min, 13 000 rpm at 4 ◦C). The supernatant, containing the cytosolic fraction, was removed and the pellet resuspended in 150 µL buffer C. To lyse the nuclei, the resuspended pellet was incubated in a shaker for 15 minutes at 1400 rpm and 4 ◦C. To remove insoluble debris, the lysate was centrifuged (5 min, 13 000 rpm at 4 ◦C) and the supernatant was transferred into a new 1.5 mL tube
900 ng of total RNA isolated from HUVEC was used as input for SMARTer Stranded Total RNA Sample Prep Kit—HI Mammalian (Takara Bio). Sequencing was performed on the NextSeq500 instrument (Illumina) using v2 chemistry, resulting in an average of 34 million reads per library with 1,× 75bp single end setup.

treatment_protocol: Cells were transfected using Lipofectamine RNAiMAX according to the instructions provided by Thermo Fisher Scientific. A custom Silencer™ Select siRNA library (Thermo Fisher Scientific, Cat. No. 4392426) was used for individual knockdowns of lncRNA targets (GAS5, NUTM2B-AS1 and MIR222HG, with transfection performed using 25 nM siRNA. Silencer™ Select Negative Control No. 1 siRNA (Thermo Fisher Scientific, Cat. No. 4390844) served as a control. Cell medium was changed to EGM after 4 h and again the next day. All siRNA experiments were performed for 48 h.

value: HUVEC


title: HC25_FB_ZT20

description: Control 25C replicate 1 ZT20

value: w1118 (iso31 / Bloomington stock #5905)

value: female


title: Primary microglia, vehicle, 4 h, replicate 1

description:
Library name: Con1
Column name in all_sample_raw_count.tsv: Con1


title: PNH10_Linpositive_PNH-type_GEM

description: 10x Genomics


title: H520, shRNA-PARN, rep5

description: NCI-H520 cells, transfected with shRNA_PARN, 72 hrs, replicate 5

tag: cell line


title: HC25_FB_ZT18

description: Control 25C replicate 1 ZT18

value: mated

value: young flies (~8 d old)


title: HC25_FB_ZT16

description: Control 25C replicate 1 ZT16


title: kd-siRNA-MIR222HG_3

description: Library name: Sample 9


title: PNH10_CD34positive_Wild-type_GEM

description: 10x Genomics

value: FACS sorted Linjeage-CD34+ bone marrow


title: HC25_FB_ZT14

description: Control 25C replicate 1 ZT14


title: H520, shRNA-PARN, rep4

description: NCI-H520 cells, transfected with shRNA_PARN, 72 hrs, replicate 4

tag: genotype


title: kd-siRNA-NUTM2BAS1_1

description: Library name: Sample 10


title: H520, shRNA-PARN, rep2

description: NCI-H520 cells, transfected with shRNA_PARN, 72 hrs, replicate 2


title: HC25_FB_ZT12

description: Control 25C replicate 1 ZT12


title: kd-siRNA-MIR222HG_2

description: Library name: Sample 8


title: kd-siRNA-MIR222HG_1

description: Library name: Sample 7


title: Healthy9_Linpositive_cells_GEM

description: 10x Genomics

tag: subject

value: Healthy

value: Female


title: H520, shRNA-PARN, rep3

description: NCI-H520 cells, transfected with shRNA_PARN, 72 hrs, replicate 3


title: H520, shRNA-PARN, rep1

description: NCI-H520 cells, transfected with shRNA_PARN, 72 hrs, replicate 1


title: kd-siRNA-GAS5_2

description: Library name: Sample 5


title: HC25_FB_ZT10

description: Control 25C replicate 1 ZT10


title: Healthy8_Linpositive_cells_GEM

description: 10x Genomics

tag: disease state


title: kd-siRNA-GAS5_3

description: Library name: Sample 6


title: kd-siRNA-GAS5_1

description: Library name: Sample 4


title: PNH10_CD34positive_PNH-type_GEM

description: 10x Genomics

tag: tissue


title: HC25_FB_ZT06

description: Control 25C replicate 1 ZT06


title: HC25_FB_ZT04

description: Control 25C replicate 1 ZT04


title: H520, shRNA-CTRL, rep6

description: NCI-H520 cells, transfected with shRNA_CTRL, 72 hrs, replicate 6

tag: cell type

value: control


title: H520, shRNA-CTRL, rep5

description: NCI-H520 cells, transfected with shRNA_CTRL, 72 hrs, replicate 5


title: Healthy7_Linpositive_cells_GEM

description: 10x Genomics

value: FACS sorted Linjeage+ bone marrow

tag: Sex


title: HC25_FB_ZT08

description: Control 25C replicate 1 ZT08

value: Abdominal Fat Body (including oenocytes and epidermis)

tag: age


title: kd-siRNA-NUTM2BAS1_3

description: Library name: Sample 12


title: H520, shRNA-CTRL, rep4

description: NCI-H520 cells, transfected with shRNA_CTRL, 72 hrs, replicate 4


title: Healthy7_CD34positive_cells_GEM

description: 10x Genomics

tag: response at_primary_end_point


title: WT_2

description: Library name: Sample 2


title: WT_3

description: Library name: Sample 3


title: H520, shRNA-CTRL, rep3

description: NCI-H520 cells, transfected with shRNA_CTRL, 72 hrs, replicate 3


title: H520, shRNA-CTRL, rep2

description: NCI-H520 cells, transfected with shRNA_CTRL, 72 hrs, replicate 2


title: PANC-1_K17_R3

city: New Haven

first: Luisa

last: Escobar-Hoyos

state: CT

address: 15 York Street PO box 208040

department: Therapeutic Radiology

institute: Yale University

description: Library name: Sample 18

data_processing:
Sequence information was extracted in fastq format using bcl2fastq software 1.8.4
Reads were mapped using STAR (2.7.3a)
Reads per gene were counted using kallisto 0.46.2
Assembly: GRCh38.96, GRCm38.96
Supplementary files format and content: tab-delimited text file includes raw counts for each sample

growth_protocol: Cells were cultured at 37°C with 5% CO2 in Dulbecco's Modified Eagle Medium (DMEM, Gibco, #11995073), supplemented with 10% fetal bovine serum (FBS, Corning, #35010CV) and 1% penicillin and streptomycin (Gibco, #15140122). Cells were routinely screened for Mycoplasma using a PCR-based detection kit (ATCC, #30-1012K) and were used at fewer than 10 passages from thawing.

extract_protocol:
Total RNA was extracted with TRIzol reagent (Life Technologies, #10296010).
Library preparation was done using Illumina's TruSeq RNA Library Preparation Kit following the manufacterer's instructions.

value: Pancreatic ductal adenocarcinoma

value: K17 over-expression


title: H520, shRNA-CTRL, rep1

description: NCI-H520 cells, transfected with shRNA_CTRL, 72 hrs, replicate 1

value: lung squamous cell carcinoma cell line


title: WT_1

description: Library name: Sample 1


title: Healthy11_CD34positive_cells_GEM

description: 10x Genomics


title: PANC-1_K17_R2

description: Library name: Sample 17


title: HC25_FB_2_ZT22

description: Control 25C replicate 2 ZT22

tag: strain

value: Control


title: Healthy10_Linpositive_cells_GEM

description: 10x Genomics

value: Human bone marrow


title: PANC-1_K17_R1

description: Library name: Sample 16


title: Healthy11_Linpositive_cells_GEM

description: 10x Genomics


title: Healthy8_CD34positive_cells_GEM

description: 10x Genomics


title: HC25_FB_2_ZT20

description: Control 25C replicate 2 ZT20

tag: mating status


title: PANC-1_EV_R3

description: Library name: Sample 15

value: Empty vector


title: HC25_FB_ZT02

description: Control 25C replicate 1 ZT02

tag: temperature


title: L0031_brush

city: Charlestown

first: Neal

middle: Patrick

last: Smith

state: MA

address: 149 13th Street

institute: Massachusetts General Hospital

description:
Library name: sample 9
10X Genomics

data_processing:
Raw sequencing data was pre-processed with CellRanger (v6.0.1, 10x Genomics) to demultiplex FASTQ reads, align reads to the human reference genome (GRCh38, v3.0.0 from 10x Genomics), and count unique molecular identifiers (UMI) to produce a cell x gene count matrix
Assembly: GRCh38
Supplementary files format and content: raw_feature_bc_matrix.h5 files includes the UMI counts for all droplets for each sample in .h5 format
Supplementary files format and content: all_contig_annotations.csv files include the TCR data for the associated samples
Supplementary files format and content: The supplementary .h5ad files contain the cell counts and clustsering for high-quality CD4 and CD8 T cells.

molecule: polyA RNA

source_name: lung

extract_protocol:
BAL samples were obtained by administering 120 ml of normal saline via the working channel of the bronchoscope into the right middle lobe (RML) with suctioning to collect the sample. After collecting the BAL, a 4-mm sterile nylon cytology brush was used to perform endobronchial brushing of a RML airway segment under direct visualization with a second cytology brush used to collect a second sample adjacent to the first endobronchial sample. The cytology brushes were each placed in RPMI media containing 5% human AB serum on ice prior to sample processing. Cells were stained with Fc receptor blockade, fluorescently-conjugated antibodies against CD45, CD14, CD20, CD3, and eFluor 780 fixable viability dye. A BD FACSAria Fusion flow cytometer (BD Biosciences) was used to sort eFluor 780-CD45+CD14-CD20-CD3+ cells. Sorted cells were resuspended at a target concentration of 1000 cells per μl in preparation for loading on the 10X Chromium instrument.
Single cell suspensions were profiled by scRNAseq with the Chromium Single Cell 5’ kit (V2, 10x Genomics PN-1000190). TCR-enriched cDNA libraries were generated with the Chromium Single Cell V(D)J Enrichment kit (10x Genomics PN-1000005). Library quality was assessed with an Agilent 2100 Bioanalyzer. All libraries were sequenced on an Illumina Nextseq 500/550 instrument.

value: lung

tag: sample type

value: endobronchial brushing

tag: donor

tag: group

value: healthy control

tag: allergen sensitization

tag: donor age

tag: donor sex

value: F

tag: donor race

value: white


title: L0034_bal

description:
Library name: sample 10
10X Genomics

value: bronchoalveloar lavage

value: allergic asthmatic

value: cat and house dust mite

value: Black or African


title: Healthy9_CD34positive_cells_GEM

description: 10x Genomics

tag: subject

value: Healthy

value: FACS sorted Linjeage-CD34+ bone marrow

value: Female


title: MTX2-KDM6A

city: Shanxi

first: wenbin

last: ren

address: 56 Xinjian South Road, Yingze District, Taiyuan City

institute: Shanxi Medical University

data_processing:
Chromatin was obtained from about 2×107 SV129 mESCs and crosslinked with formaldehyde.
Immunoprecipitation was then performed overnight at 4°C with a KDM6A antibody.
The immunoprecipitated DNA was analyzed by in-depth genome-wide DNA sequencing, performed by Capital Bio Technology (Beijing, China).
Raw sequencing data were examined using the Illumina Analytical Pipeline, aligned with the Mus musculus reference genome (UCSC, mm10) using Bowtie2, and further analyzed by MACS (model-based ChIP-Seq analysis; https://github.com / taoliu / MACS).
DNA-protein complexes were analyzed by qPCR with specific primers to amplify multiple regions of the gene. Several pairs of primers were designed.
The percentage of DNA captured by ChIP (input percentage) was calculated as follows: Percent input = 2% × 2(C[T] 2% input sample − C[T] IP sample), where C[T] = Ct = threshold cycle of the PCR reaction. Three independent ChIP experiments were performed for each analysis.
Assembly: mm10
Supplementary files format and content: bed

organism: Mus musculus

source_name: embryo

growth_protocol: SV129 mESCs were obtained from the Stem Cell Bank, Chinese Academy of Sciences (Shanghai, China). After seeding onto culture dishes coated with 0.2% gelatin (Sigma-Aldrich, St. Louis, MO USA), cells were incubated in medium (Invitrogen, Carlsbad, USA) supplemented with 0.1 mM non-essential amino acids (Invitrogen), 0.1 mM glutamate (Invitrogen), 0.1 mM β-mercaptoethanol (Life Technologies), 1000 U/ml leukemia inhibitory factor (Millipore, USA), and 15% fetal bovine serum (Invitrogen). Cells were maintained at 37°C in a humidified atmosphere with 5% CO2 and passaged every 3 days. The medium was changed daily.

extract_protocol:
Cells were fixed with 1% formaldehyde for 10 minutes. After quenching and cell lysis, chromatin was sonicated using a E220 focused-ultrasonicator (Covaris).
ChIP-seq libraries were prepared using the KAPA HTP Library Preparation Kit complemented with NEXTflex DNA Barcodes from Bioo Scientific. 10 ng of DNA was used as starting material for input and ip samples. Libraries were amplified using 30 cycles on the thermocycler. Post amplification libraries were size selected at 250-500bp in length using Agencourt AMPure XP beads from Beckman Coulter. Libraries were validated using the Agilent High Sensitivity DNA Kit.

treatment_protocol: When cells reached 75% confluency, 0.12 μM MTX (Sigma-Aldrich) was added to the culture flask. Cells were collected 24 hours later.

value: embryo

tag: cell line

value: embryonic stem cells

tag: genotype

value: folate deficiency

tag: treatment

value: neurodevelopment

tag: antibody


title: L0031_bal

description:
Library name: sample 8
10X Genomics

tag: tissue


title: HC25_FB_2_ZT16

description: Control 25C replicate 2 ZT16

value: Abdominal Fat Body (including oenocytes and epidermis)

value: w1118 (iso31 / Bloomington stock #5905)

tag: Sex

value: female

value: mated

tag: age

value: young flies (~8 d old)

tag: diet condition

value: Control

tag: zt

tag: replicate


title: L0025_brush

description:
Library name: sample 7
10X Genomics

value: lung

tag: sample type

value: endobronchial brushing

tag: donor

value: healthy control

value: F

value: white


title: PANC-1_EV_R1

description: Library name: Sample 13

tag: cell type

value: Pancreatic ductal adenocarcinoma

value: Empty vector


title: PANC-1_EV_R2

description: Library name: Sample 14


title: MTX1-KDM6A

value: embryo


title: HC25_FB_2_ZT24

description: Control 25C replicate 2 ZT24

tag: strain

tag: mating status

tag: temperature


title: HC25_FB_2_ZT12

description: Control 25C replicate 2 ZT12


title: L0034_brush

description:
Library name: sample 11
10X Genomics

tag: group

value: allergic asthmatic

tag: allergen sensitization

value: cat and house dust mite

tag: donor age

tag: donor sex

tag: donor race

value: Black or African


title: HC25_FB_2_ZT14

description: Control 25C replicate 2 ZT14

tag: tissue

value: Abdominal Fat Body (including oenocytes and epidermis)


title: HC25_FB_2_ZT18

description: Control 25C replicate 2 ZT18

value: w1118 (iso31 / Bloomington stock #5905)

tag: Sex


title: L0025_bal

description:
Library name: sample 6
10X Genomics

value: bronchoalveloar lavage


title: MTX1-INPUT

tag: cell line

value: embryonic stem cells

tag: genotype

value: folate deficiency

tag: treatment

value: neurodevelopment

tag: antibody

value: none (input)


title: Healthy10_CD34positive_cells_GEM

description: 10x Genomics

tag: subject

tag: disease state

value: Healthy

value: Human bone marrow

value: FACS sorted Linjeage-CD34+ bone marrow

value: Male

tag: age

tag: response at_primary_end_point


title: L3.6_K17_WT_R3

description: Library name: Sample 12

tag: cell type

value: Pancreatic adenosquamous carcinoma

value: K17 wild-type


title: HC25_FB_2_ZT10

description: Control 25C replicate 2 ZT10

tag: strain

value: female

tag: mating status

value: mated

value: young flies (~8 d old)

tag: temperature

tag: diet condition

value: Control

tag: zt

tag: replicate


title: L0020_bal

description:
Library name: sample 4
10X Genomics

tag: tissue

value: lung

tag: sample type

tag: donor

tag: group

value: healthy control

tag: allergen sensitization

tag: donor age

tag: donor sex

value: M

tag: donor race

value: white


title: L3.6_K17_KO_R3

description: Library name: Sample 9

tag: cell line

tag: treatment

value: K17 CRISPR-Cas9 mediated knockout


title: HC25_FB_2_ZT08

description: Control 25C replicate 2 ZT08

value: Abdominal Fat Body (including oenocytes and epidermis)

value: w1118 (iso31 / Bloomington stock #5905)

tag: Sex

tag: age


title: MTX1-IgG

value: embryo

tag: cell type

value: embryonic stem cells

tag: genotype

value: folate deficiency

value: neurodevelopment

tag: antibody

value: anti-IgG


title: C2-KDM6A

value: WT


title: L0012_brush

description:
Library name: sample 3
10X Genomics

value: endobronchial brushing

value: allergic asthmatic

value: cat and house dust mite

value: F


title: L0012_bal

description:
Library name: sample 2
10X Genomics

value: lung

value: bronchoalveloar lavage


title: L3.6_K17_KO_R2

description: Library name: Sample 8

value: Pancreatic adenosquamous carcinoma


title: L3.6_K17_KO_R1

description: Library name: Sample 7


title: HC25_FB_2_ZT04

description: Control 25C replicate 2 ZT04

tag: strain

value: female

tag: mating status

value: mated

value: young flies (~8 d old)

tag: temperature

tag: diet condition

value: Control

tag: zt


title: C1-INPUT

tag: tissue

value: embryo

value: none (input)


title: C1-KDM6A

value: embryonic stem cells


title: L3.6_K17_WT_R2

description: Library name: Sample 11

value: K17 wild-type


title: HC25_FB_2_ZT06

description: Control 25C replicate 2 ZT06

value: Abdominal Fat Body (including oenocytes and epidermis)

value: w1118 (iso31 / Bloomington stock #5905)

tag: replicate


title: L23

status: Public on Mar 09 2026

city: Athens

first: Vasilis

last: Aidinis

state: Vari

address: Fleming 34

country: Greece

institute: Institute for Fundamental Biomedical Research, BSRC Alexander Fleming

description: Library name: Sample 9

data_processing:
Alignment of the FASTQ files was performed against the mouse genome build mm10 using a custom Bash script, as previously described (Scholtes et. al.  Cancer Letters, 2025).
Read counting on the 3’ UTRs and differential expression analysis were conducted using the metaseqR2 bioconductor package (Fanidis et.al., Briefings in Bioinformatics, 2021). Genes corresponding to the following biotypes were excluded: polymorphic_pseudogene, processed_transcript, pseudogene, IG_V_pseudogene, misc_RNA, IG_C_gene, IG_J_gene, IG_D_gene, IG_LV_gene, TR_V_gene, TR_V_pseudogene, TEC, and processed_pseudogene. Gene counts were normalized with DESEQ (Anders & Huber, Genome Biology, 2010) through metaseqR2. Genes with more than 10 counts in at least 50% of the samples were kept for further processing. For differential expression analysis, the PANDORA algorithm (Moulos & Hatzis, Nucleic Acid Research 2015) was used to estimate a meta p-value integrating the results from the DESEQ, DESEQ2 (Love et al., Genome Biology, 2014), edgeR (Robinson et al., Bioinformatics, 2010), limma (Ritchie et al., Nucleic Acids Research, 2015), NBPSeq (Di et al., BMC Bioinformatics, 2011), and NOISeq (Tarazona et al., Nucleic Acids Research, 2011) algorithms. All additional parameters were set to default.
Assembly: mm10
Supplementary files format and content: Tab-delimited files containing DESeq normalized counts for each Ensembl gene for Quant-Seq data.

growth_protocol: Mice were housed and bred under specific pathogen-free (SPF) conditions at the animal facilities of the Biomedical Sciences Research Center “Alexander Fleming.” Environmental parameters were maintained at 20–22°C with 55 ± 5% humidity and a 12-hour light/dark cycle. Animals had unrestricted access to food (Mucedola diet #4RF21: 12% moisture, 18.5% protein, 3% fat, 53.5% carbohydrates, and 6% crude fibre) and water. Breeding was conducted for over 10 generations within the same genetic background (C57Bl6/J). Experimental cohorts were randomly assigned and consisted of sex- and age-matched littermates. Daily health checks ensured proper animal welfare, and no unanticipated mortality occurred.

extract_protocol:
RNA was extracted using Tri-reagent (MRC) according to manufacturer instructions.
RNA quality was assessed on an Agilent Tapestation 4150 with the High Sensitivity RNA ScreenTape (Agilent), both according to manufacturer's protocols.

treatment_protocol: BLM-induced pulmonary fibrosis was induced via the oropharyngeal aspiration of BLM (0.8 U/Kg), The antifibrotic agent EL244 was administered in therapeutic mode, from day 7 post-BLM until day 14 (sacrifice).

value: wild type

tag: disease state

value: fibrotic (bleomycin)


title: L3.6_K17_WT_R1

description: Library name: Sample 10


title: L0020_brush

description:
Library name: sample 5
10X Genomics

tag: sample type

value: endobronchial brushing

tag: donor

tag: group

value: healthy control

tag: allergen sensitization

tag: donor age

tag: donor sex

value: M

value: white


title: L0010_brush

description:
Library name: sample 1
10X Genomics

value: lung

value: allergic asthmatic

value: cat and house dust mite

value: F

tag: donor race

value: Asian


title: L13

description: Library name: Sample 7

tag: genotype

tag: treatment


title: L8

description: Library name: Sample 5

tag: strain

value: vehicle


title: L18

description: Library name: Sample 8


title: HC25_FB_2_ZT02

description: Control 25C replicate 2 ZT02

tag: Sex

value: female

tag: mating status

value: mated

tag: age

value: young flies (~8 d old)

value: Control


title: L6

description: Library name: Sample 4


title: L9

description: Library name: Sample 6


title: L4

description: Library name: Sample 3

value: healthy (saline)


title: L1

description: Library name: Sample 1

value: wild type


title: L2

description: Library name: Sample 2


title: C2-INPUT

value: embryo

tag: cell line

tag: cell type

value: embryonic stem cells

value: WT

value: neurodevelopment

tag: antibody

value: none (input)


title: MTX2-INPU

tag: tissue

value: folate deficiency


title: P3_2020: E15-RANKL-fatemap_P3, rep1

city: Fukuoka

first: Shinichiro

last: Sawa

address: 3-1-1 Maidashi, Higashiku

country: Japan

institute: Kyushu University

data_processing:
The demultiplexing, barcoded processing, gene counting were performed using the Cell Ranger software v6.0.1 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger).
Supplementary files format and content: mm10
Supplementary files format and content: Tab-separated values files and matrix files (barcodes.tsv, features.tsv, matrix.mtx).

source_name: Bone and bone marrow

extract_protocol:
Bones were isolated from limbs and minced with scissors or tweezers. The fragmented bones were incubated in DMEM containing Collagenase P, Liberase TH and DNase I at 37ºC with gentle shaking for 1h. Dissociated cells were collected every 20 min and strained with a 100 μm nylon mesh. Cells were collected by centrifuge and resuspended in FACS buffer (2% FBS/2 mM EDTA/PBS). For experiments on bone marrow cells prepared from 3-week-old mice, red blood cells were removed by 0.165 M ammonium chloride treatment. The isolated cells were stained with antibodies against CD45, Ter119 and CD31. Fixable viability dye (eBioscience) was used to stain dead cells. Cells were sorted for single cell 3' gene expression library construction.
Library construction was performed according to the manufacturer’s instructions (single cell 3’ v3.1 protocol, 10x Genomics) with slight modification. Cells up to 10,000 were directly sorted into the master mix and loaded together with partitioning oil and gel beads into the chip to generate the gel bead-in-emulsion (GEM).

value: Bone and bone marrow

value: tdTomato+

value: Tnfsf11-tTA; LC1; R26-tdTom

value: Doxycycline from E15 to P3

tag: developmental stage


title: E15-Col10a1

value: Col10a1-Cre; R26-tdTom


title: E15_2021_Jul_bone: E15_WholeBone


title: R342C_ID

first: Lara

last: Ladney

state: New York

address: 550 1st Ave

department: Pathology

institute: NYU Langone Health

description:
Library name: R342C_ID
mESCs expressing transgene R342C mutant CTCF with degradation of the endogenous CTCF

data_processing:
WGBS-NOMe-seq fasta files were trimmed using trimGalore using “--length 10 -q 30 --paired --three_prime_clip_R1 10 --clip_R2 10” to remove illumina adaptor, exclude low quality reads and the 10 bp on the 3’ and 5’ end to remove the fill-in nucleotides introduced by the library preparation steps. The data were then aligned against the mm10 reference genome using Bismark aligner. Duplicated reads were removed using Bismark deduplicate_bismark function and methylation in WCG (ACG and TCG) and HGC (GCA, GCC and GCT) context were called using bismark_methylation_extractor in NOMe-seq mode. Methylation in GCG context is ignored because of ambiguity and CCG to take into account off-target methylation from the GpC methyl-transferase. The first bp on the 3’ end of a read was ignored using “--ignore_3prime_r2 1” as it shows a methylation bias. Methylation on positive and negative strands were aggregated since we did not observe substantial hemi-methylation genome-wide and at CTCF peaks. GpC and CpG overlapping the ENCODE blacklisted regions were excluded as well as sites with more than 100x coverage.
Assembly: mm10
Supplementary files format and content: Bigwig files for methylaion percentage at WCG sites and HGC sites

source_name: Embryo

growth_protocol: mESCs were cultured under feeder-free conditions in 0.1% gelatin coated dishes  in DMEM  supplemented with 15% fetal bovine serum , 100 U/ml penicillin - 100 μg/ml streptomycin, 1 X GlutaMax supplement, 1 mM sodium pyruvate , 1 X MEM non-essential amino-acids , 50 μM b-mercaptoethanol, 104 U/ml leukemia inhibitory factor , 3 μM CHIR99021 and 1 μM MEK inhibitor PD0325901.

extract_protocol:
Nuclei were extracted using cold lysis buffer (10 mM Tris-HCl pH 7.4, 10 mM NaCl, 0.5 mM spermidine, 1.5 mM MgCl2, 0.1 mM EDTA, 0.25% IGEPAL CA-630) for 3-6 minutes after checking nuclei under a light microscope. The sample was centrifuged for 5 minutes at 800x g at 4°C, washed with 1 ml ice-cold nuclei wash buffer (10 mM Tris-HCl pH 7.4, 50 mM NaCl, 0.5 mM spermidine, 1.5 mM MgCl2, 0.1 mM EDTA), and centrifuged again for 5 minutes at 800x g at 4°C. The nuclei were resuspended in 564 µL 1X GpC MTase reaction buffer and equilibrated to 37°C. This was followed by 6 minutes of enzyme treatment (300 µL 1 M sucrose, 34 µL 10X GpC methyltransferase reaction buffer, 3 µL 32 mM S-Adenosylmethionine (SAM) (NEB, B9003), 100 µL GpC methyltransferase (M.CviPI), followed by another 6 minutes of enzyme treatment (50 µL GpC methyltransferase (M.CviPI), 3 µL 32 mM S-Adenosylmethionine (SAM)). An equal volume of pre-warmed 2X stop buffer (20 mM Tris-HCl pH 7.4, 600 mM NaCl, 10 mM EDTA, 1% SDS) was added and mixed well. Proteinase K (200 µg/mL) was added to the GpC methylation reaction and incubated for 4 hours at 56°C, followed by RNase A (100 µg/mL) for 30 minutes at 37°C, followed by an additional round of proteinase K (200 µg/mL) for 30 minutes at 37°C. HMW DNA was extracted using phenol-chloroform and precipitated by isopropanol. Briefly, an equal volume of phenol-chloroform was added to the samples and mixed vigorously. The samples were centrifuged at 13,000 rpm for 10 minutes at room temperature. The aqueous phase was transferred to a clean tube, and 0.7-1 times the volume of isopropanol was added, mixed well, and incubated at room temperature for 30 minutes. The samples were then centrifuged at 13,000 rpm for 10 minutes at 4°C. The DNA pellet was washed with 1 ml pre-chilled 70% ethanol. After removing all the ethanol, the DNA was dissolved in EB buffer and incubated at 37°C for 30 minutes.
The DNA was fragmented prior to bisulfite conversion. Fragmentation was performed via sonication (Diagenode Bioruptor) to produce 350 bp fragments. Bisulfite conversion was performed using the EZ DNA Methylation-Gold Kit, and the library was prepared using the xGen TM Methyl-Seq DNA library prep kit following the manufacturer’s protocols.

treatment_protocol: For degradation of endogenous CTCF, the auxin-inducible degron was induced by adding 500 μM indole-3-acetic acid (IAA, the chemical analog of auxin)  to the media. Expression of transgenes was achieved by the addition of doxycycline (Dox, 1 μg/ml) to the media. The cells were treated with IAA and/or Dox for 2 days.

value: Embryo

value: mESCs

value: IAA + doxycycline


title: Mid-ctl-3

city: Los Angeles

first: Dario

last: Boffelli

state: CA

address: 700 N San Vicente Blvd

department: Pediatrics

institute: Cedars Sinai

description:
Library name: Mid-ctl-3
MC3

data_processing:
Data processing was done by Novogene as described below
Raw data (raw reads) of fastq format were firstly processed throughfastpsoftware. In this step, clean data (clean reads) were obtained by removing reads containing adapter, reads containing ploy-Nandlowquality reads from raw data. At the same time, Q20, Q30 and GCcontent the clean data were calculated. All the downstreamanalyses were basedon the clean data with high quality.
Reference genome and gene model annotation files were downloadedfrom genome website directly. Index of the reference genome was built 3 using Hisat2 v2.0.5 and paired-end clean 1 reads were aligned tothereference genome using Hisat2 v2.0.5. We selected Hisat2 as the mapping tool for that Hisat2 can generate a database of splice junctionsbased on the gene model annotation file and thus a better mappingresult than other non-splice mapping tools.
featureCounts v1.5.0-p3 was used to count the reads numbers mappedto each gene. And then FPKM of each gene was calculated basedonthelength of the gene and reads count mapped to this gene. FPKM, expected number of Fragments Per Kilobase of transcript sequenceper Millions base pairs sequenced, considers the effect of sequencingdepthand gene length for the reads count at the same time, and is currentlythe most commonly used method for estimating gene expressionlevels.
Assembly: mm39
Supplementary files format and content: txt file with the Fpkm values for each sample

source_name: Mid colon organoid

extract_protocol:
Organoids were harvested in RLT solution, and RNA was extracted using the RNeasy Qiagen kit following the manufacturer’s protocol (Cat. No. 74104).
The library was prepared by Novogene following their standard pipeline. Briefly, messenger RNA was purified from total RNA using poly-T oligo-attached magnetic beads. After fragmentation, the first strand cDNA was synthesized using random hexamer primers, followed by the second strand cDNA synthesis using either dTTP for non strand specific library or dUTP for strand specific library.

treatment_protocol: Three days after passaging, organoids were cultured in differentiation media and with ENR + Wnt3a CM used as the control (proliferative state).

value: Mid colon organoid

value: ENR + WntCM


title: Proximal-Diff-3

description:
Library name: Proximal-Diff-3
PD3

source_name: Proximal colon organoid

value: Proximal colon organoid

value: Differentiation media


title: Distal-Diff-3

description:
Library name: Distal-Diff-3
DD3

source_name: Distal colon organoid

value: Distal colon organoid


title: Distal-ctl-3

description:
Library name: Distal-ctl-3
DC3


title: WT_ID

description:
Library name: WT_ID
mESCs expressing transgene WT CTCF with degradation of the endogenous CTCF


title: Mid-Diff-3

description:
Library name: Mid-Diff-3
MD3


title: Mid-Diff-2

description:
Library name: Mid-Diff-2
MD2


title: Distal-Diff-2

description:
Library name: Distal-Diff-2
DD2


title: Proximal-ctl-3

description:
Library name: Proximal-ctl-3
PC3


title: Mid-ctl-2

description:
Library name: Mid-ctl-2
MC2


title: Proximal-ctl-2

description:
Library name: Proximal-ctl-2
PC2


title: E17_2020: E15-RANKL-fatemap_E17, rep1

value: Doxycycline from E15 to E17


title: Distal-Diff-1

description:
Library name: Distal-Diff-1
DD1


title: Distal-ctl-1

description:
Library name: Distal-ctl-1
DC1


title: Mid-ctl-1

description:
Library name: Mid-ctl-1
MC1


title: Distal-ctl-2

description:
Library name: Distal-ctl-2
DC2


title: E15_2021_Jul: E15-RANKL, rep4


title: Mid-Diff-1

description:
Library name: Mid-Diff-1
MD1


title: Proximal-Diff-1

description:
Library name: Proximal-Diff-1
PD1


title: Proximal-Diff-2

description:
Library name: Proximal-Diff-2
PD2


title: Proximal-ctl-1

description:
Library name: Proximal-ctl-1
PC1


title: Bd21-3, Mutant, M0063, juvenile leaf tissue

city: Aarhus

first: Guillaume

last: Ramstein

address: Moellers Alle

country: Denmark

institute: Aarhus University

description:
Library name: 9A1
Row name in SIEVE_M6_TPM.csv: M0063

data_processing:
Sequencing reads were aligned using hisat2, with default options and converted into bam files using samtools.
The number of reads were counted using the featureCounts function of subread configured to count fragments instead of reads (-p), using the Bd21-3 genome annotations (-a BdistachyonBd21_3_537_v1.2.gene.gff3).
Assembly: BdistachyonBd21_3_537_v1.2
Supplementary files format and content: Tab-delimited file contained transcripts per million (TPM) for each sample

organism: Brachypodium distachyon

source_name: leaf

growth_protocol: Seeds from Brachypodium distachyon accession Bd21-3 were treated with 0 mM (controls) or 7 mM (mutants) of the mutagen sodium azide at the M1 generation (first generation after seed mutagenesis). Then, plants were grown in the greenhouse (20h/4h light/dark, 21°C/18°C target temperature, at Aarhus University Flakkebjerg) and allowed to self-fertilize naturally across 6 generations, from M1 to M6.

extract_protocol:
Tissue sampling was performed in three independent biological replicates per line. The three replicates from each line were subsequently pooled for total RNA extraction. RNA extraction was conducted by Azenta GeneWiz (Leipzig, Germany).
Library preparation was performed using Poly(A) selection and paired-end sequencing (2 × 150 bp) was conducted on an Illumina NovaSeq platform at Azenta GeneWiz (Leipzig, Germany).

treatment_protocol: M6 seeds were pre-incubated for one week at 37°C and 20% relative humidity to enhance and synchronize germination. Germination and seedling growth were carried out in climate-controlled chambers at Aarhus University Flakkebjerg under a 16h/8h light/dark photoperiod, 23°C/21°C day/night temperatures, and 60% relative humidity. At the three-leaf stage (approximately 16 days post-germination), the blades of all three fully expanded leaves (excluding the cotyledons) were harvested and immediately frozen in liquid nitrogen, then stored at –80 °C until further processing.

value: leaf

value: juvenile leaf tissue

value: Mutant

tag: batch


title: Bd21-3, Mutant, M0211, juvenile leaf tissue

description:
Library name: 96A1
Row name in SIEVE_M6_TPM.csv: M0211


title: Bd21-3, Mutant, M0274, juvenile leaf tissue

description:
Library name: 97A1
Row name in SIEVE_M6_TPM.csv: M0274


title: Bd21-3, Mutant, M0087, juvenile leaf tissue

description:
Library name: 98A1
Row name in SIEVE_M6_TPM.csv: M0087


title: Bd21-3, Mutant, M0403, juvenile leaf tissue

description:
Library name: 95A1
Row name in SIEVE_M6_TPM.csv: M0403


title: Bd21-3, Mutant, M0058, juvenile leaf tissue

description:
Library name: 94A1
Row name in SIEVE_M6_TPM.csv: M0058


title: Bd21-3, Mutant, M0202, juvenile leaf tissue

description:
Library name: 99A1
Row name in SIEVE_M6_TPM.csv: M0202


title: Bd21-3, Mutant, M0340, juvenile leaf tissue

description:
Library name: 92A1
Row name in SIEVE_M6_TPM.csv: M0340


title: Bd21-3, Mutant, M0365, juvenile leaf tissue

description:
Library name: 91A1
Row name in SIEVE_M6_TPM.csv: M0365


title: Bd21-3, Mutant, M0046, juvenile leaf tissue

description:
Library name: 90A1
Row name in SIEVE_M6_TPM.csv: M0046


title: Bd21-3, Mutant, M1688, juvenile leaf tissue

description:
Library name: 856A1
Row name in SIEVE_M6_TPM.csv: M1688


title: Bd21-3, Mutant, M0447, juvenile leaf tissue

description:
Library name: 86A1
Row name in SIEVE_M6_TPM.csv: M0447


title: Bd21-3, Mutant, M0173, juvenile leaf tissue

description:
Library name: 89A1
Row name in SIEVE_M6_TPM.csv: M0173


title: Bd21-3, Control, C17, juvenile leaf tissue

description:
Library name: 857A1
Row name in SIEVE_M6_TPM.csv: C17

value: Control


title: Bd21-3, Mutant, M0025, juvenile leaf tissue

description:
Library name: 88A1
Row name in SIEVE_M6_TPM.csv: M0025


title: Bd21-3, Mutant, M0110, juvenile leaf tissue

description:
Library name: 85A1
Row name in SIEVE_M6_TPM.csv: M0110


title: Bd21-3, Mutant, M1778, juvenile leaf tissue

description:
Library name: 851A1
Row name in SIEVE_M6_TPM.csv: M1778


title: Bd21-3, Mutant, M0485, juvenile leaf tissue

description:
Library name: 850A1
Row name in SIEVE_M6_TPM.csv: M0485


title: Bd21-3, Mutant, M1768, juvenile leaf tissue

description:
Library name: 855A1
Row name in SIEVE_M6_TPM.csv: M1768


title: Bd21-3, Mutant, M1018, juvenile leaf tissue

description:
Library name: 854A1
Row name in SIEVE_M6_TPM.csv: M1018


title: Bd21-3, Mutant, M0518, juvenile leaf tissue

description:
Library name: 853A1
Row name in SIEVE_M6_TPM.csv: M0518


title: Bd21-3, Mutant, M1108, juvenile leaf tissue

description:
Library name: 852A1
Row name in SIEVE_M6_TPM.csv: M1108


title: Bd21-3, Mutant, M0325, juvenile leaf tissue

description:
Library name: 84A1
Row name in SIEVE_M6_TPM.csv: M0325


title: Bd21-3, Mutant, M0474, juvenile leaf tissue

description:
Library name: 847A1
Row name in SIEVE_M6_TPM.csv: M0474


title: Bd21-3, Mutant, M1011, juvenile leaf tissue

description:
Library name: 848A1
Row name in SIEVE_M6_TPM.csv: M1011


title: Bd21-3, Mutant, M1131, juvenile leaf tissue

description:
Library name: 843A1
Row name in SIEVE_M6_TPM.csv: M1131


title: Bd21-3, Mutant, M0473, juvenile leaf tissue

description:
Library name: 846A1
Row name in SIEVE_M6_TPM.csv: M0473


title: Bd21-3, Mutant, M0458, juvenile leaf tissue

description:
Library name: 844A1
Row name in SIEVE_M6_TPM.csv: M0458


title: Bd21-3, Control, C48, juvenile leaf tissue

description:
Library name: 841A1
Row name in SIEVE_M6_TPM.csv: C48


title: Bd21-3, Mutant, M1718, juvenile leaf tissue

description:
Library name: 840A1
Row name in SIEVE_M6_TPM.csv: M1718


title: Bd21-3, Mutant, M0501, juvenile leaf tissue

description:
Library name: 842A1
Row name in SIEVE_M6_TPM.csv: M0501


title: Bd21-3, Mutant, M0381, juvenile leaf tissue

description:
Library name: 83A1
Row name in SIEVE_M6_TPM.csv: M0381


title: Bd21-3, Mutant, M0011, juvenile leaf tissue

description:
Library name: 87A1
Row name in SIEVE_M6_TPM.csv: M0011


title: Bd21-3, Mutant, M1358, juvenile leaf tissue

description:
Library name: 849A1
Row name in SIEVE_M6_TPM.csv: M1358


title: Bd21-3, Mutant, M0370, juvenile leaf tissue

description:
Library name: 8A1
Row name in SIEVE_M6_TPM.csv: M0370


title: Bd21-3, Mutant, M1370, juvenile leaf tissue

description:
Library name: 845A1
Row name in SIEVE_M6_TPM.csv: M1370


title: Bd21-3, Mutant, M1751, juvenile leaf tissue

description:
Library name: 837A1
Row name in SIEVE_M6_TPM.csv: M1751


title: Bd21-3, Mutant, M0503, juvenile leaf tissue

description:
Library name: 836A1
Row name in SIEVE_M6_TPM.csv: M0503


title: Bd21-3, Mutant, M1722, juvenile leaf tissue

description:
Library name: 834A1
Row name in SIEVE_M6_TPM.csv: M1722


title: Bd21-3, Mutant, M1225, juvenile leaf tissue

description:
Library name: 830A1
Row name in SIEVE_M6_TPM.csv: M1225


title: Bd21-3, Mutant, M1535, juvenile leaf tissue

description:
Library name: 832A1
Row name in SIEVE_M6_TPM.csv: M1535


title: Bd21-3, Mutant, M0194, juvenile leaf tissue

description:
Library name: 82A1
Row name in SIEVE_M6_TPM.csv: M0194


title: Bd21-3, Mutant, M1046, juvenile leaf tissue

description:
Library name: 835A1
Row name in SIEVE_M6_TPM.csv: M1046


title: Bd21-3, Mutant, M1037, juvenile leaf tissue

description:
Library name: 839A1
Row name in SIEVE_M6_TPM.csv: M1037


title: Bd21-3, Mutant, M1711, juvenile leaf tissue

description:
Library name: 826A1
Row name in SIEVE_M6_TPM.csv: M1711


title: Bd21-3, Mutant, M1003, juvenile leaf tissue

description:
Library name: 833A1
Row name in SIEVE_M6_TPM.csv: M1003


title: Bd21-3, Mutant, M1759, juvenile leaf tissue

description:
Library name: 827A1
Row name in SIEVE_M6_TPM.csv: M1759


title: Bd21-3, Mutant, M1775, juvenile leaf tissue

description:
Library name: 831A1
Row name in SIEVE_M6_TPM.csv: M1775


title: Bd21-3, Mutant, M1725, juvenile leaf tissue

description:
Library name: 825A1
Row name in SIEVE_M6_TPM.csv: M1725


title: Bd21-3, Mutant, M0507, juvenile leaf tissue

description:
Library name: 823A1
Row name in SIEVE_M6_TPM.csv: M0507


title: Bd21-3, Mutant, M0122, juvenile leaf tissue

description:
Library name: 81A1
Row name in SIEVE_M6_TPM.csv: M0122


title: Bd21-3, Mutant, M1054, juvenile leaf tissue

description:
Library name: 824A1
Row name in SIEVE_M6_TPM.csv: M1054


title: Bd21-3, Mutant, M1068, juvenile leaf tissue

description:
Library name: 820A1
Row name in SIEVE_M6_TPM.csv: M1068


title: Bd21-3, Mutant, M1320, juvenile leaf tissue

description:
Library name: 818A1
Row name in SIEVE_M6_TPM.csv: M1320


title: Bd21-3, Mutant, M0994, juvenile leaf tissue

description:
Library name: 828A1
Row name in SIEVE_M6_TPM.csv: M0994


title: Bd21-3, Mutant, M0506, juvenile leaf tissue

description:
Library name: 812A1
Row name in SIEVE_M6_TPM.csv: M0506


title: Bd21-3, Mutant, M1237, juvenile leaf tissue

description:
Library name: 829A1
Row name in SIEVE_M6_TPM.csv: M1237


title: Bd21-3, Mutant, M1438, juvenile leaf tissue

description:
Library name: 822A1
Row name in SIEVE_M6_TPM.csv: M1438


title: Bd21-3, Mutant, M1612, juvenile leaf tissue

description:
Library name: 814A1
Row name in SIEVE_M6_TPM.csv: M1612


title: Bd21-3, Mutant, M1590, juvenile leaf tissue

description:
Library name: 815A1
Row name in SIEVE_M6_TPM.csv: M1590


title: Bd21-3, Mutant, M0999, juvenile leaf tissue

description:
Library name: 811A1
Row name in SIEVE_M6_TPM.csv: M0999


title: Bd21-3, Mutant, M1117, juvenile leaf tissue

description:
Library name: 813A1
Row name in SIEVE_M6_TPM.csv: M1117


title: Bd21-3, Mutant, M0600, juvenile leaf tissue

description:
Library name: 810A1
Row name in SIEVE_M6_TPM.csv: M0600


title: Bd21-3, Mutant, M1611, juvenile leaf tissue

description:
Library name: 808A1
Row name in SIEVE_M6_TPM.csv: M1611


title: Bd21-3, Mutant, M0249, juvenile leaf tissue

description:
Library name: 80A1
Row name in SIEVE_M6_TPM.csv: M0249


title: Bd21-3, Mutant, M1002, juvenile leaf tissue

description:
Library name: 806A1
Row name in SIEVE_M6_TPM.csv: M1002


title: Bd21-3, Mutant, M1641, juvenile leaf tissue

description:
Library name: 807A1
Row name in SIEVE_M6_TPM.csv: M1641


title: Bd21-3, Mutant, M0950, juvenile leaf tissue

description:
Library name: 809A1
Row name in SIEVE_M6_TPM.csv: M0950


title: Bd21-3, Mutant, M0984, juvenile leaf tissue

description:
Library name: 816A1
Row name in SIEVE_M6_TPM.csv: M0984


title: Bd21-3, Mutant, M0949, juvenile leaf tissue

description:
Library name: 817A1
Row name in SIEVE_M6_TPM.csv: M0949


title: Bd21-3, Mutant, M0935, juvenile leaf tissue

description:
Library name: 805A1
Row name in SIEVE_M6_TPM.csv: M0935


title: Bd21-3, Mutant, M1512, juvenile leaf tissue

description:
Library name: 821A1
Row name in SIEVE_M6_TPM.csv: M1512


title: Bd21-3, Mutant, M1600, juvenile leaf tissue

description:
Library name: 802A1
Row name in SIEVE_M6_TPM.csv: M1600


title: Bd21-3, Control, C86, juvenile leaf tissue

description:
Library name: 819A1
Row name in SIEVE_M6_TPM.csv: C86


title: Bd21-3, Mutant, M1644, juvenile leaf tissue

description:
Library name: 804A1
Row name in SIEVE_M6_TPM.csv: M1644


title: Bd21-3, Mutant, M1681, juvenile leaf tissue

description:
Library name: 796B1
Row name in SIEVE_M6_TPM.csv: M1681


title: Bd21-3, Mutant, M1747, juvenile leaf tissue

description:
Library name: 791B1
Row name in SIEVE_M6_TPM.csv: M1747


title: Bd21-3, Mutant, M1676, juvenile leaf tissue

description:
Library name: 799B1
Row name in SIEVE_M6_TPM.csv: M1676


title: Bd21-3, Mutant, M1369, juvenile leaf tissue

description:
Library name: 801A1
Row name in SIEVE_M6_TPM.csv: M1369


title: Bd21-3, Mutant, M0372, juvenile leaf tissue

description:
Library name: 7A1
Row name in SIEVE_M6_TPM.csv: M0372


title: Bd21-3, Mutant, M1733, juvenile leaf tissue

description:
Library name: 800B1
Row name in SIEVE_M6_TPM.csv: M1733


title: Bd21-3, Mutant, M1389, juvenile leaf tissue

description:
Library name: 786B1
Row name in SIEVE_M6_TPM.csv: M1389


title: Bd21-3, Mutant, M1537, juvenile leaf tissue

description:
Library name: 788B1
Row name in SIEVE_M6_TPM.csv: M1537


title: Bd21-3, Mutant, M1772, juvenile leaf tissue

description:
Library name: 787B1
Row name in SIEVE_M6_TPM.csv: M1772


title: Bd21-3, Mutant, M1592, juvenile leaf tissue

description:
Library name: 785B1
Row name in SIEVE_M6_TPM.csv: M1592


title: Bd21-3, Mutant, M1803, juvenile leaf tissue

description:
Library name: 797B1
Row name in SIEVE_M6_TPM.csv: M1803


title: Bd21-3, Mutant, M1706, juvenile leaf tissue

description:
Library name: 782B1
Row name in SIEVE_M6_TPM.csv: M1706


title: Bd21-3, Mutant, M1637, juvenile leaf tissue

description:
Library name: 795B1
Row name in SIEVE_M6_TPM.csv: M1637


title: Bd21-3, Mutant, M0416, juvenile leaf tissue

description:
Library name: 79A1
Row name in SIEVE_M6_TPM.csv: M0416


title: Bd21-3, Mutant, M1461, juvenile leaf tissue

description:
Library name: 789B1
Row name in SIEVE_M6_TPM.csv: M1461


title: Bd21-3, Mutant, M1380, juvenile leaf tissue

description:
Library name: 778B1
Row name in SIEVE_M6_TPM.csv: M1380


title: Bd21-3, Mutant, M1598, juvenile leaf tissue

description:
Library name: 798B1
Row name in SIEVE_M6_TPM.csv: M1598


title: Bd21-3, Mutant, M0015, juvenile leaf tissue

description:
Library name: 77A1
Row name in SIEVE_M6_TPM.csv: M0015


title: Bd21-3, Mutant, M1654, juvenile leaf tissue

description:
Library name: 794B1
Row name in SIEVE_M6_TPM.csv: M1654


title: Bd21-3, Mutant, M1449, juvenile leaf tissue

description:
Library name: 790B1
Row name in SIEVE_M6_TPM.csv: M1449


title: Bd21-3, Mutant, M1502, juvenile leaf tissue

description:
Library name: 780B1
Row name in SIEVE_M6_TPM.csv: M1502


title: Bd21-3, Mutant, M1576, juvenile leaf tissue

description:
Library name: 792B1
Row name in SIEVE_M6_TPM.csv: M1576


title: Bd21-3, Control, C77, juvenile leaf tissue

description:
Library name: 779B1
Row name in SIEVE_M6_TPM.csv: C77


title: Bd21-3, Mutant, M1583, juvenile leaf tissue

description:
Library name: 781B1
Row name in SIEVE_M6_TPM.csv: M1583


title: Bd21-3, Mutant, M1596, juvenile leaf tissue

description:
Library name: 783B1
Row name in SIEVE_M6_TPM.csv: M1596


title: Bd21-3, Mutant, M1639, juvenile leaf tissue

description:
Library name: 793B1
Row name in SIEVE_M6_TPM.csv: M1639


title: Bd21-3, Control, C53, juvenile leaf tissue

description:
Library name: 803A1
Row name in SIEVE_M6_TPM.csv: C53


title: Bd21-3, Mutant, M1420, juvenile leaf tissue

description:
Library name: 775B1
Row name in SIEVE_M6_TPM.csv: M1420


title: Bd21-3, Mutant, M0089, juvenile leaf tissue

description:
Library name: 76A1
Row name in SIEVE_M6_TPM.csv: M0089


title: Bd21-3, Mutant, M1423, juvenile leaf tissue

description:
Library name: 773B1
Row name in SIEVE_M6_TPM.csv: M1423


title: Bd21-3, Mutant, M1422, juvenile leaf tissue

description:
Library name: 767B1
Row name in SIEVE_M6_TPM.csv: M1422


title: Bd21-3, Mutant, M1511, juvenile leaf tissue

description:
Library name: 765B1
Row name in SIEVE_M6_TPM.csv: M1511


title: Bd21-3, Mutant, M1642, juvenile leaf tissue

description:
Library name: 770B1
Row name in SIEVE_M6_TPM.csv: M1642


title: Bd21-3, Mutant, M1664, juvenile leaf tissue

description:
Library name: 774B1
Row name in SIEVE_M6_TPM.csv: M1664


title: Bd21-3, Mutant, M1525, juvenile leaf tissue

description:
Library name: 784B1
Row name in SIEVE_M6_TPM.csv: M1525


title: Bd21-3, Mutant, M1403, juvenile leaf tissue

description:
Library name: 777B1
Row name in SIEVE_M6_TPM.csv: M1403


title: Bd21-3, Mutant, M1690, juvenile leaf tissue

description:
Library name: 759B1
Row name in SIEVE_M6_TPM.csv: M1690


title: Bd21-3, Mutant, M1396, juvenile leaf tissue

description:
Library name: 776B1
Row name in SIEVE_M6_TPM.csv: M1396


title: Bd21-3, Mutant, M1760, juvenile leaf tissue

description:
Library name: 766B1
Row name in SIEVE_M6_TPM.csv: M1760


title: Bd21-3, Mutant, M1433, juvenile leaf tissue

description:
Library name: 756B1
Row name in SIEVE_M6_TPM.csv: M1433


title: Bd21-3, Mutant, M1599, juvenile leaf tissue

description:
Library name: 755B1
Row name in SIEVE_M6_TPM.csv: M1599


title: Bd21-3, Mutant, M1666, juvenile leaf tissue

description:
Library name: 753B1
Row name in SIEVE_M6_TPM.csv: M1666


title: Bd21-3, Mutant, M1371, juvenile leaf tissue

description:
Library name: 771B1
Row name in SIEVE_M6_TPM.csv: M1371


title: Bd21-3, Mutant, M1477, juvenile leaf tissue

description:
Library name: 754B1
Row name in SIEVE_M6_TPM.csv: M1477


title: Bd21-3, Mutant, M1533, juvenile leaf tissue

description:
Library name: 758B1
Row name in SIEVE_M6_TPM.csv: M1533


title: Bd21-3, Mutant, M1388, juvenile leaf tissue

description:
Library name: 760B1
Row name in SIEVE_M6_TPM.csv: M1388


title: Bd21-3, Mutant, M1456, juvenile leaf tissue

description:
Library name: 763B1
Row name in SIEVE_M6_TPM.csv: M1456


title: Bd21-3, Mutant, M1398, juvenile leaf tissue

description:
Library name: 752B1
Row name in SIEVE_M6_TPM.csv: M1398


title: Bd21-3, Mutant, M0397, juvenile leaf tissue

description:
Library name: 74A1
Row name in SIEVE_M6_TPM.csv: M0397


title: Bd21-3, Mutant, M1522, juvenile leaf tissue

description:
Library name: 747B1
Row name in SIEVE_M6_TPM.csv: M1522


title: Bd21-3, Mutant, M1506, juvenile leaf tissue

description:
Library name: 748B1
Row name in SIEVE_M6_TPM.csv: M1506


title: Bd21-3, Mutant, M1418, juvenile leaf tissue

description:
Library name: 749B1
Row name in SIEVE_M6_TPM.csv: M1418


title: Bd21-3, Mutant, M1436, juvenile leaf tissue

description:
Library name: 745B1
Row name in SIEVE_M6_TPM.csv: M1436


title: Bd21-3, Mutant, M1799, juvenile leaf tissue

description:
Library name: 746B1
Row name in SIEVE_M6_TPM.csv: M1799


title: Bd21-3, Mutant, M1474, juvenile leaf tissue

description:
Library name: 744B1
Row name in SIEVE_M6_TPM.csv: M1474


title: Bd21-3, Mutant, M1507, juvenile leaf tissue

description:
Library name: 750B1
Row name in SIEVE_M6_TPM.csv: M1507


title: Bd21-3, Mutant, M1783, juvenile leaf tissue

description:
Library name: 764B1
Row name in SIEVE_M6_TPM.csv: M1783


title: Bd21-3, Mutant, M1455, juvenile leaf tissue

description:
Library name: 741B1
Row name in SIEVE_M6_TPM.csv: M1455


title: Bd21-3, Mutant, M1488, juvenile leaf tissue

description:
Library name: 738B1
Row name in SIEVE_M6_TPM.csv: M1488


title: Bd21-3, Mutant, M1602, juvenile leaf tissue

description:
Library name: 735B1
Row name in SIEVE_M6_TPM.csv: M1602


title: Bd21-3, Mutant, M1658, juvenile leaf tissue

description:
Library name: 743B1
Row name in SIEVE_M6_TPM.csv: M1658


title: Bd21-3, Mutant, M1431, juvenile leaf tissue

description:
Library name: 731B1
Row name in SIEVE_M6_TPM.csv: M1431


title: Bd21-3, Mutant, M1452, juvenile leaf tissue

description:
Library name: 737B1
Row name in SIEVE_M6_TPM.csv: M1452


title: Bd21-3, Mutant, M1695, juvenile leaf tissue

description:
Library name: 733B1
Row name in SIEVE_M6_TPM.csv: M1695


title: Bd21-3, Mutant, M1504, juvenile leaf tissue

description:
Library name: 742B1
Row name in SIEVE_M6_TPM.csv: M1504


title: Bd21-3, Mutant, M1378, juvenile leaf tissue

description:
Library name: 734B1
Row name in SIEVE_M6_TPM.csv: M1378


title: Bd21-3, Mutant, M1565, juvenile leaf tissue

description:
Library name: 726B1
Row name in SIEVE_M6_TPM.csv: M1565


title: Bd21-3, Mutant, M1494, juvenile leaf tissue

description:
Library name: 739B1
Row name in SIEVE_M6_TPM.csv: M1494


title: Bd21-3, Mutant, M1587, juvenile leaf tissue

description:
Library name: 727B1
Row name in SIEVE_M6_TPM.csv: M1587


title: Bd21-3, Mutant, M1601, juvenile leaf tissue

description:
Library name: 725B1
Row name in SIEVE_M6_TPM.csv: M1601


title: Bd21-3, Mutant, M0440, juvenile leaf tissue

description:
Library name: 72A1
Row name in SIEVE_M6_TPM.csv: M0440


title: Bd21-3, Mutant, M1362, juvenile leaf tissue

description:
Library name: 730B1
Row name in SIEVE_M6_TPM.csv: M1362


title: Bd21-3, Mutant, M0333, juvenile leaf tissue

description:
Library name: 71A1
Row name in SIEVE_M6_TPM.csv: M0333


title: Bd21-3, Mutant, M1400, juvenile leaf tissue

description:
Library name: 740B1
Row name in SIEVE_M6_TPM.csv: M1400


title: Bd21-3, Mutant, M1545, juvenile leaf tissue

description:
Library name: 729B1
Row name in SIEVE_M6_TPM.csv: M1545


title: Bd21-3, Mutant, M1696, juvenile leaf tissue

description:
Library name: 723B1
Row name in SIEVE_M6_TPM.csv: M1696


title: Bd21-3, Mutant, M1773, juvenile leaf tissue

description:
Library name: 722B1
Row name in SIEVE_M6_TPM.csv: M1773


title: Bd21-3, Mutant, M1407, juvenile leaf tissue

description:
Library name: 732B1
Row name in SIEVE_M6_TPM.csv: M1407


title: Bd21-3, Mutant, M1521, juvenile leaf tissue

description:
Library name: 736B1
Row name in SIEVE_M6_TPM.csv: M1521


title: Bd21-3, Mutant, M1762, juvenile leaf tissue

description:
Library name: 720B1
Row name in SIEVE_M6_TPM.csv: M1762


title: Bd21-3, Mutant, M1692, juvenile leaf tissue

description:
Library name: 721B1
Row name in SIEVE_M6_TPM.csv: M1692


title: Bd21-3, Mutant, M1782, juvenile leaf tissue

description:
Library name: 719B1
Row name in SIEVE_M6_TPM.csv: M1782


title: Bd21-3, Mutant, M1561, juvenile leaf tissue

description:
Library name: 724B1
Row name in SIEVE_M6_TPM.csv: M1561


title: Bd21-3, Mutant, M0252, juvenile leaf tissue

description:
Library name: 73A1
Row name in SIEVE_M6_TPM.csv: M0252


title: Bd21-3, Mutant, M1441, juvenile leaf tissue

description:
Library name: 715B1
Row name in SIEVE_M6_TPM.csv: M1441


title: Bd21-3, Mutant, M1710, juvenile leaf tissue

description:
Library name: 718B1
Row name in SIEVE_M6_TPM.csv: M1710


title: Bd21-3, Mutant, M1579, juvenile leaf tissue

description:
Library name: 716B1
Row name in SIEVE_M6_TPM.csv: M1579


title: Bd21-3, Mutant, M1395, juvenile leaf tissue

description:
Library name: 728B1
Row name in SIEVE_M6_TPM.csv: M1395


title: Bd21-3, Mutant, M1756, juvenile leaf tissue

description:
Library name: 714B1
Row name in SIEVE_M6_TPM.csv: M1756


title: Bd21-3, Mutant, M1665, juvenile leaf tissue

description:
Library name: 713B1
Row name in SIEVE_M6_TPM.csv: M1665


title: Bd21-3, Mutant, M1498, juvenile leaf tissue

description:
Library name: 711B1
Row name in SIEVE_M6_TPM.csv: M1498


title: Bd21-3, Mutant, M1769, juvenile leaf tissue

description:
Library name: 712B1
Row name in SIEVE_M6_TPM.csv: M1769


title: Bd21-3, Control, C75, juvenile leaf tissue

description:
Library name: 717B1
Row name in SIEVE_M6_TPM.csv: C75


title: Bd21-3, Mutant, M1738, juvenile leaf tissue

description:
Library name: 709B1
Row name in SIEVE_M6_TPM.csv: M1738


title: Bd21-3, Mutant, M0271, juvenile leaf tissue

description:
Library name: 70A1
Row name in SIEVE_M6_TPM.csv: M0271


title: Bd21-3, Mutant, M1405, juvenile leaf tissue

description:
Library name: 710B1
Row name in SIEVE_M6_TPM.csv: M1405


title: Bd21-3, Mutant, M1424, juvenile leaf tissue

description:
Library name: 706B1
Row name in SIEVE_M6_TPM.csv: M1424


title: Bd21-3, Mutant, M1795, juvenile leaf tissue

description:
Library name: 707B1
Row name in SIEVE_M6_TPM.csv: M1795


title: Bd21-3, Mutant, M1700, juvenile leaf tissue

description:
Library name: 708B1
Row name in SIEVE_M6_TPM.csv: M1700


title: Bd21-3, Mutant, M1661, juvenile leaf tissue

description:
Library name: 700B1
Row name in SIEVE_M6_TPM.csv: M1661


title: Bd21-3, Mutant, M1788, juvenile leaf tissue

description:
Library name: 705B1
Row name in SIEVE_M6_TPM.csv: M1788


title: Bd21-3, Mutant, M1705, juvenile leaf tissue

description:
Library name: 703B1
Row name in SIEVE_M6_TPM.csv: M1705


title: Bd21-3, Mutant, M1517, juvenile leaf tissue

description:
Library name: 702B1
Row name in SIEVE_M6_TPM.csv: M1517


title: Bd21-3, Mutant, M1674, juvenile leaf tissue

description:
Library name: 704B1
Row name in SIEVE_M6_TPM.csv: M1674


title: Bd21-3, Mutant, M1670, juvenile leaf tissue

description:
Library name: 697B1
Row name in SIEVE_M6_TPM.csv: M1670


title: Bd21-3, Mutant, M1802, juvenile leaf tissue

description:
Library name: 693B1
Row name in SIEVE_M6_TPM.csv: M1802


title: Bd21-3, Mutant, M1580, juvenile leaf tissue

description:
Library name: 699B1
Row name in SIEVE_M6_TPM.csv: M1580


title: Bd21-3, Mutant, M0221, juvenile leaf tissue

description:
Library name: 6A1
Row name in SIEVE_M6_TPM.csv: M0221


title: Bd21-3, Mutant, M1753, juvenile leaf tissue

description:
Library name: 692B1
Row name in SIEVE_M6_TPM.csv: M1753


title: Bd21-3, Mutant, M1767, juvenile leaf tissue

description:
Library name: 701B1
Row name in SIEVE_M6_TPM.csv: M1767


title: Bd21-3, Mutant, M1539, juvenile leaf tissue

description:
Library name: 698B1
Row name in SIEVE_M6_TPM.csv: M1539


title: Bd21-3, Mutant, M1376, juvenile leaf tissue

description:
Library name: 688B1
Row name in SIEVE_M6_TPM.csv: M1376


title: Bd21-3, Control, C81, juvenile leaf tissue

description:
Library name: 696B1
Row name in SIEVE_M6_TPM.csv: C81


title: Bd21-3, Mutant, M1529, juvenile leaf tissue

description:
Library name: 694B1
Row name in SIEVE_M6_TPM.csv: M1529


title: Bd21-3, Mutant, M1660, juvenile leaf tissue

description:
Library name: 689B1
Row name in SIEVE_M6_TPM.csv: M1660


title: Bd21-3, Mutant, M0306, juvenile leaf tissue

description:
Library name: 69A1
Row name in SIEVE_M6_TPM.csv: M0306


title: Bd21-3, Mutant, M1372, juvenile leaf tissue

description:
Library name: 695B1
Row name in SIEVE_M6_TPM.csv: M1372


title: Bd21-3, Mutant, M1636, juvenile leaf tissue

description:
Library name: 690B1
Row name in SIEVE_M6_TPM.csv: M1636


title: Bd21-3, Mutant, M1735, juvenile leaf tissue

description:
Library name: 687B1
Row name in SIEVE_M6_TPM.csv: M1735


title: Bd21-3, Mutant, M1734, juvenile leaf tissue

description:
Library name: 683B1
Row name in SIEVE_M6_TPM.csv: M1734


title: Bd21-3, Mutant, M1483, juvenile leaf tissue

description:
Library name: 685B1
Row name in SIEVE_M6_TPM.csv: M1483


title: Bd21-3, Mutant, M1515, juvenile leaf tissue

description:
Library name: 686B1
Row name in SIEVE_M6_TPM.csv: M1515


title: Bd21-3, Mutant, M1439, juvenile leaf tissue

description:
Library name: 682B1
Row name in SIEVE_M6_TPM.csv: M1439


title: Bd21-3, Mutant, M1792, juvenile leaf tissue

description:
Library name: 680B1
Row name in SIEVE_M6_TPM.csv: M1792


title: Bd21-3, Mutant, M0415, juvenile leaf tissue

description:
Library name: 67A1
Row name in SIEVE_M6_TPM.csv: M0415


title: Bd21-3, Mutant, M1543, juvenile leaf tissue

description:
Library name: 681B1
Row name in SIEVE_M6_TPM.csv: M1543


title: Bd21-3, Mutant, M1534, juvenile leaf tissue

description:
Library name: 677B1
Row name in SIEVE_M6_TPM.csv: M1534


title: Bd21-3, Mutant, M1406, juvenile leaf tissue

description:
Library name: 676B1
Row name in SIEVE_M6_TPM.csv: M1406


title: Bd21-3, Mutant, M1610, juvenile leaf tissue

description:
Library name: 675B1
Row name in SIEVE_M6_TPM.csv: M1610


title: Bd21-3, Mutant, M1551, juvenile leaf tissue

description:
Library name: 679B1
Row name in SIEVE_M6_TPM.csv: M1551


title: Bd21-3, Mutant, M1566, juvenile leaf tissue

description:
Library name: 674B1
Row name in SIEVE_M6_TPM.csv: M1566


title: Bd21-3, Mutant, M1606, juvenile leaf tissue

description:
Library name: 678B1
Row name in SIEVE_M6_TPM.csv: M1606


title: Bd21-3, Mutant, M1757, juvenile leaf tissue

description:
Library name: 672B1
Row name in SIEVE_M6_TPM.csv: M1757


title: Bd21-3, Mutant, M1429, juvenile leaf tissue

description:
Library name: 691B1
Row name in SIEVE_M6_TPM.csv: M1429


title: Bd21-3, Mutant, M1540, juvenile leaf tissue

description:
Library name: 673B1
Row name in SIEVE_M6_TPM.csv: M1540


title: Bd21-3, Mutant, M1470, juvenile leaf tissue

description:
Library name: 671B1
Row name in SIEVE_M6_TPM.csv: M1470


title: Bd21-3, Mutant, M1617, juvenile leaf tissue

description:
Library name: 669B1
Row name in SIEVE_M6_TPM.csv: M1617


title: Bd21-3, Mutant, M1365, juvenile leaf tissue

description:
Library name: 670B1
Row name in SIEVE_M6_TPM.csv: M1365


title: Bd21-3, Mutant, M1385, juvenile leaf tissue

description:
Library name: 666B1
Row name in SIEVE_M6_TPM.csv: M1385


title: Bd21-3, Mutant, M1789, juvenile leaf tissue

description:
Library name: 665B1
Row name in SIEVE_M6_TPM.csv: M1789


title: Bd21-3, Mutant, M1793, juvenile leaf tissue

description:
Library name: 668B1
Row name in SIEVE_M6_TPM.csv: M1793


title: Bd21-3, Mutant, M1684, juvenile leaf tissue

description:
Library name: 664B1
Row name in SIEVE_M6_TPM.csv: M1684


title: Bd21-3, Mutant, M1382, juvenile leaf tissue

description:
Library name: 662B1
Row name in SIEVE_M6_TPM.csv: M1382


title: Bd21-3, Mutant, M1500, juvenile leaf tissue

description:
Library name: 667B1
Row name in SIEVE_M6_TPM.csv: M1500


title: Bd21-3, Mutant, M1683, juvenile leaf tissue

description:
Library name: 661B1
Row name in SIEVE_M6_TPM.csv: M1683


title: Bd21-3, Control, C08, juvenile leaf tissue

description:
Library name: 65A1
Row name in SIEVE_M6_TPM.csv: C08


title: Bd21-3, Mutant, M1375, juvenile leaf tissue

description:
Library name: 660B1
Row name in SIEVE_M6_TPM.csv: M1375


title: Bd21-3, Mutant, M1570, juvenile leaf tissue

description:
Library name: 658B1
Row name in SIEVE_M6_TPM.csv: M1570


title: Bd21-3, Mutant, M1426, juvenile leaf tissue

description:
Library name: 659B1
Row name in SIEVE_M6_TPM.csv: M1426


title: Bd21-3, Mutant, M1478, juvenile leaf tissue

description:
Library name: 655B1
Row name in SIEVE_M6_TPM.csv: M1478


title: Bd21-3, Mutant, M1712, juvenile leaf tissue

description:
Library name: 654B1
Row name in SIEVE_M6_TPM.csv: M1712


title: Bd21-3, Mutant, M1516, juvenile leaf tissue

description:
Library name: 657B1
Row name in SIEVE_M6_TPM.csv: M1516


title: Bd21-3, Mutant, M1404, juvenile leaf tissue

description:
Library name: 656B1
Row name in SIEVE_M6_TPM.csv: M1404


title: Bd21-3, Mutant, M1721, juvenile leaf tissue

description:
Library name: 651B1
Row name in SIEVE_M6_TPM.csv: M1721


title: Bd21-3, Mutant, M1560, juvenile leaf tissue

description:
Library name: 650B1
Row name in SIEVE_M6_TPM.csv: M1560


title: Bd21-3, Mutant, M1465, juvenile leaf tissue

description:
Library name: 652B1
Row name in SIEVE_M6_TPM.csv: M1465


title: Bd21-3, Mutant, M1786, juvenile leaf tissue

description:
Library name: 648B1
Row name in SIEVE_M6_TPM.csv: M1786


title: Bd21-3, Mutant, M1520, juvenile leaf tissue

description:
Library name: 663B1
Row name in SIEVE_M6_TPM.csv: M1520


title: Bd21-3, Mutant, M1629, juvenile leaf tissue

description:
Library name: 647B1
Row name in SIEVE_M6_TPM.csv: M1629


title: Bd21-3, Mutant, M1402, juvenile leaf tissue

description:
Library name: 649B1
Row name in SIEVE_M6_TPM.csv: M1402


title: Bd21-3, Mutant, M0136, juvenile leaf tissue

description:
Library name: 64A1
Row name in SIEVE_M6_TPM.csv: M0136


title: Bd21-3, Mutant, M1448, juvenile leaf tissue

description:
Library name: 644B1
Row name in SIEVE_M6_TPM.csv: M1448


title: Bd21-3, Mutant, M1727, juvenile leaf tissue

description:
Library name: 645B1
Row name in SIEVE_M6_TPM.csv: M1727


title: Bd21-3, Mutant, M1667, juvenile leaf tissue

description:
Library name: 646B1
Row name in SIEVE_M6_TPM.csv: M1667


title: Bd21-3, Mutant, M1784, juvenile leaf tissue

description:
Library name: 641B1
Row name in SIEVE_M6_TPM.csv: M1784


title: Bd21-3, Mutant, M1453, juvenile leaf tissue

description:
Library name: 653B1
Row name in SIEVE_M6_TPM.csv: M1453


title: Bd21-3, Control, C96, juvenile leaf tissue

description:
Library name: 643B1
Row name in SIEVE_M6_TPM.csv: C96


title: Bd21-3, Mutant, M1367, juvenile leaf tissue

description:
Library name: 640B1
Row name in SIEVE_M6_TPM.csv: M1367


title: Bd21-3, Mutant, M1743, juvenile leaf tissue

description:
Library name: 636B1
Row name in SIEVE_M6_TPM.csv: M1743


title: Bd21-3, Mutant, M1541, juvenile leaf tissue

description:
Library name: 642B1
Row name in SIEVE_M6_TPM.csv: M1541


title: Bd21-3, Mutant, M1682, juvenile leaf tissue

description:
Library name: 633B1
Row name in SIEVE_M6_TPM.csv: M1682


title: Bd21-3, Mutant, M1383, juvenile leaf tissue

description:
Library name: 635B1
Row name in SIEVE_M6_TPM.csv: M1383


title: Bd21-3, Mutant, M0421, juvenile leaf tissue

description:
Library name: 63A1
Row name in SIEVE_M6_TPM.csv: M0421


title: Bd21-3, Mutant, M1630, juvenile leaf tissue

description:
Library name: 638B1
Row name in SIEVE_M6_TPM.csv: M1630


title: Bd21-3, Mutant, M1673, juvenile leaf tissue

description:
Library name: 637B1
Row name in SIEVE_M6_TPM.csv: M1673


title: Bd21-3, Mutant, M1374, juvenile leaf tissue

description:
Library name: 631B1
Row name in SIEVE_M6_TPM.csv: M1374


title: Bd21-3, Mutant, M1742, juvenile leaf tissue

description:
Library name: 639B1
Row name in SIEVE_M6_TPM.csv: M1742


title: Bd21-3, Mutant, M1479, juvenile leaf tissue

description:
Library name: 632B1
Row name in SIEVE_M6_TPM.csv: M1479


title: Bd21-3, Mutant, M1763, juvenile leaf tissue

description:
Library name: 630B1
Row name in SIEVE_M6_TPM.csv: M1763


title: Bd21-3, Mutant, M1472, juvenile leaf tissue

description:
Library name: 634B1
Row name in SIEVE_M6_TPM.csv: M1472


title: Bd21-3, Mutant, M1653, juvenile leaf tissue

description:
Library name: 628B1
Row name in SIEVE_M6_TPM.csv: M1653


title: Bd21-3, Mutant, M0425, juvenile leaf tissue

description:
Library name: 62A1
Row name in SIEVE_M6_TPM.csv: M0425


title: Bd21-3, Mutant, M1544, juvenile leaf tissue

description:
Library name: 626B1
Row name in SIEVE_M6_TPM.csv: M1544


title: Bd21-3, Mutant, M1437, juvenile leaf tissue

description:
Library name: 627B1
Row name in SIEVE_M6_TPM.csv: M1437


title: Bd21-3, Mutant, M1467, juvenile leaf tissue

description:
Library name: 623B1
Row name in SIEVE_M6_TPM.csv: M1467


title: Bd21-3, Mutant, M1558, juvenile leaf tissue

description:
Library name: 625B1
Row name in SIEVE_M6_TPM.csv: M1558


title: Bd21-3, Mutant, M1463, juvenile leaf tissue

description:
Library name: 622B1
Row name in SIEVE_M6_TPM.csv: M1463


title: Bd21-3, Mutant, M1473, juvenile leaf tissue

description:
Library name: 624B1
Row name in SIEVE_M6_TPM.csv: M1473


title: Bd21-3, Mutant, M1631, juvenile leaf tissue

description:
Library name: 620B1
Row name in SIEVE_M6_TPM.csv: M1631


title: Bd21-3, Mutant, M0031, juvenile leaf tissue

description:
Library name: 61A1
Row name in SIEVE_M6_TPM.csv: M0031


title: Bd21-3, Mutant, M1363, juvenile leaf tissue

description:
Library name: 621B1
Row name in SIEVE_M6_TPM.csv: M1363


title: Bd21-3, Mutant, M1454, juvenile leaf tissue

description:
Library name: 616B1
Row name in SIEVE_M6_TPM.csv: M1454


title: Bd21-3, Mutant, M1613, juvenile leaf tissue

description:
Library name: 618B1
Row name in SIEVE_M6_TPM.csv: M1613


title: Bd21-3, Mutant, M1675, juvenile leaf tissue

description:
Library name: 619B1
Row name in SIEVE_M6_TPM.csv: M1675


title: Bd21-3, Mutant, M1645, juvenile leaf tissue

description:
Library name: 614B1
Row name in SIEVE_M6_TPM.csv: M1645


title: Bd21-3, Mutant, M1409, juvenile leaf tissue

description:
Library name: 615B1
Row name in SIEVE_M6_TPM.csv: M1409


title: Bd21-3, Mutant, M1492, juvenile leaf tissue

description:
Library name: 629B1
Row name in SIEVE_M6_TPM.csv: M1492


title: Bd21-3, Mutant, M1451, juvenile leaf tissue

description:
Library name: 612B1
Row name in SIEVE_M6_TPM.csv: M1451


title: Bd21-3, Mutant, M1496, juvenile leaf tissue

description:
Library name: 617B1
Row name in SIEVE_M6_TPM.csv: M1496


title: Bd21-3, Mutant, M1668, juvenile leaf tissue

description:
Library name: 613B1
Row name in SIEVE_M6_TPM.csv: M1668


title: Bd21-3, Mutant, M1647, juvenile leaf tissue

description:
Library name: 611B1
Row name in SIEVE_M6_TPM.csv: M1647


title: Bd21-3, Mutant, M1749, juvenile leaf tissue

description:
Library name: 610B1
Row name in SIEVE_M6_TPM.csv: M1749


title: Bd21-3, Mutant, M1787, juvenile leaf tissue

description:
Library name: 605B1
Row name in SIEVE_M6_TPM.csv: M1787


title: Bd21-3, Mutant, M1686, juvenile leaf tissue

description:
Library name: 602B1
Row name in SIEVE_M6_TPM.csv: M1686


title: Bd21-3, Mutant, M1430, juvenile leaf tissue

description:
Library name: 607B1
Row name in SIEVE_M6_TPM.csv: M1430


title: Bd21-3, Control, C88, juvenile leaf tissue

description:
Library name: 608B1
Row name in SIEVE_M6_TPM.csv: C88


title: Bd21-3, Mutant, M1360, juvenile leaf tissue

description:
Library name: 604B1
Row name in SIEVE_M6_TPM.csv: M1360


title: Bd21-3, Mutant, M0448, juvenile leaf tissue

description:
Library name: 5A1
Row name in SIEVE_M6_TPM.csv: M0448


title: Bd21-3, Mutant, M0064, juvenile leaf tissue

description:
Library name: 59A1
Row name in SIEVE_M6_TPM.csv: M0064


title: Bd21-3, Mutant, M1045, juvenile leaf tissue

description:
Library name: 600A1
Row name in SIEVE_M6_TPM.csv: M1045


title: Bd21-3, Mutant, M1526, juvenile leaf tissue

description:
Library name: 601B1
Row name in SIEVE_M6_TPM.csv: M1526


title: Bd21-3, Mutant, M1491, juvenile leaf tissue

description:
Library name: 609B1
Row name in SIEVE_M6_TPM.csv: M1491


title: Bd21-3, Mutant, M1780, juvenile leaf tissue

description:
Library name: 603B1
Row name in SIEVE_M6_TPM.csv: M1780


title: Bd21-3, Mutant, M0932, juvenile leaf tissue

description:
Library name: 599A1
Row name in SIEVE_M6_TPM.csv: M0932


title: Bd21-3, Mutant, M1345, juvenile leaf tissue

description:
Library name: 596A1
Row name in SIEVE_M6_TPM.csv: M1345


title: Bd21-3, Mutant, M1128, juvenile leaf tissue

description:
Library name: 598A1
Row name in SIEVE_M6_TPM.csv: M1128


title: Bd21-3, Mutant, M1157, juvenile leaf tissue

description:
Library name: 597A1
Row name in SIEVE_M6_TPM.csv: M1157


title: Bd21-3, Mutant, M0017, juvenile leaf tissue

description:
Library name: 60A1
Row name in SIEVE_M6_TPM.csv: M0017


title: Bd21-3, Mutant, M0959, juvenile leaf tissue

description:
Library name: 590A1
Row name in SIEVE_M6_TPM.csv: M0959


title: Bd21-3, Mutant, M1030, juvenile leaf tissue

description:
Library name: 593A1
Row name in SIEVE_M6_TPM.csv: M1030


title: Bd21-3, Mutant, M1101, juvenile leaf tissue

description:
Library name: 588A1
Row name in SIEVE_M6_TPM.csv: M1101


title: Bd21-3, Mutant, M1304, juvenile leaf tissue

description:
Library name: 589A1
Row name in SIEVE_M6_TPM.csv: M1304


title: Bd21-3, Mutant, M1178, juvenile leaf tissue

description:
Library name: 591A1
Row name in SIEVE_M6_TPM.csv: M1178


title: Bd21-3, Mutant, M1118, juvenile leaf tissue

description:
Library name: 585A1
Row name in SIEVE_M6_TPM.csv: M1118


title: Bd21-3, Mutant, M1221, juvenile leaf tissue

description:
Library name: 594A1
Row name in SIEVE_M6_TPM.csv: M1221


title: Bd21-3, Mutant, M1140, juvenile leaf tissue

description:
Library name: 587A1
Row name in SIEVE_M6_TPM.csv: M1140


title: Bd21-3, Mutant, M1059, juvenile leaf tissue

description:
Library name: 595A1
Row name in SIEVE_M6_TPM.csv: M1059


title: Bd21-3, Mutant, M1240, juvenile leaf tissue

description:
Library name: 583A1
Row name in SIEVE_M6_TPM.csv: M1240


title: Bd21-3, Mutant, M1077, juvenile leaf tissue

description:
Library name: 582A1
Row name in SIEVE_M6_TPM.csv: M1077


title: Bd21-3, Mutant, M0970, juvenile leaf tissue

description:
Library name: 576A1
Row name in SIEVE_M6_TPM.csv: M0970


title: Bd21-3, Mutant, M1078, juvenile leaf tissue

description:
Library name: 592A1
Row name in SIEVE_M6_TPM.csv: M1078


title: Bd21-3, Mutant, M0962, juvenile leaf tissue

description:
Library name: 577A1
Row name in SIEVE_M6_TPM.csv: M0962


title: Bd21-3, Mutant, M0206, juvenile leaf tissue

description:
Library name: 57A1
Row name in SIEVE_M6_TPM.csv: M0206


title: Bd21-3, Mutant, M0008, juvenile leaf tissue

description:
Library name: 58A1
Row name in SIEVE_M6_TPM.csv: M0008


title: Bd21-3, Mutant, M1053, juvenile leaf tissue

description:
Library name: 570A1
Row name in SIEVE_M6_TPM.csv: M1053


title: Bd21-3, Mutant, M1342, juvenile leaf tissue

description:
Library name: 571A1
Row name in SIEVE_M6_TPM.csv: M1342


title: Bd21-3, Mutant, M0925, juvenile leaf tissue

description:
Library name: 574A1
Row name in SIEVE_M6_TPM.csv: M0925


title: Bd21-3, Mutant, M0957, juvenile leaf tissue

description:
Library name: 580A1
Row name in SIEVE_M6_TPM.csv: M0957


title: Bd21-3, Mutant, M1031, juvenile leaf tissue

description:
Library name: 572A1
Row name in SIEVE_M6_TPM.csv: M1031


title: Bd21-3, Mutant, M0300, juvenile leaf tissue

description:
Library name: 56A1
Row name in SIEVE_M6_TPM.csv: M0300


title: Bd21-3, Mutant, M1115, juvenile leaf tissue

description:
Library name: 573A1
Row name in SIEVE_M6_TPM.csv: M1115


title: Bd21-3, Control, C71, juvenile leaf tissue

description:
Library name: 578A1
Row name in SIEVE_M6_TPM.csv: C71


title: Bd21-3, Mutant, M1220, juvenile leaf tissue

description:
Library name: 568A1
Row name in SIEVE_M6_TPM.csv: M1220


title: Bd21-3, Mutant, M1052, juvenile leaf tissue

description:
Library name: 567A1
Row name in SIEVE_M6_TPM.csv: M1052


title: Bd21-3, Mutant, M1006, juvenile leaf tissue

description:
Library name: 586A1
Row name in SIEVE_M6_TPM.csv: M1006


title: Bd21-3, Mutant, M1327, juvenile leaf tissue

description:
Library name: 565A1
Row name in SIEVE_M6_TPM.csv: M1327


title: Bd21-3, Mutant, M0973, juvenile leaf tissue

description:
Library name: 566A1
Row name in SIEVE_M6_TPM.csv: M0973


title: Bd21-3, Mutant, M1083, juvenile leaf tissue

description:
Library name: 581A1
Row name in SIEVE_M6_TPM.csv: M1083


title: Bd21-3, Mutant, M0981, juvenile leaf tissue

description:
Library name: 564A1
Row name in SIEVE_M6_TPM.csv: M0981


title: Bd21-3, Mutant, M1249, juvenile leaf tissue

description:
Library name: 562A1
Row name in SIEVE_M6_TPM.csv: M1249


title: Bd21-3, Mutant, M1192, juvenile leaf tissue

description:
Library name: 563A1
Row name in SIEVE_M6_TPM.csv: M1192


title: Bd21-3, Mutant, M0171, juvenile leaf tissue

description:
Library name: 55A1
Row name in SIEVE_M6_TPM.csv: M0171


title: Bd21-3, Mutant, M1122, juvenile leaf tissue

description:
Library name: 561A1
Row name in SIEVE_M6_TPM.csv: M1122


title: Bd21-3, Mutant, M1246, juvenile leaf tissue

description:
Library name: 557A1
Row name in SIEVE_M6_TPM.csv: M1246


title: Bd21-3, Mutant, M1301, juvenile leaf tissue

description:
Library name: 559A1
Row name in SIEVE_M6_TPM.csv: M1301


title: Bd21-3, Mutant, M1170, juvenile leaf tissue

description:
Library name: 558A1
Row name in SIEVE_M6_TPM.csv: M1170


title: Bd21-3, Mutant, M1075, juvenile leaf tissue

description:
Library name: 555A1
Row name in SIEVE_M6_TPM.csv: M1075


title: Bd21-3, Mutant, M1208, juvenile leaf tissue

description:
Library name: 551A1
Row name in SIEVE_M6_TPM.csv: M1208


title: Bd21-3, Mutant, M1058, juvenile leaf tissue

description:
Library name: 550A1
Row name in SIEVE_M6_TPM.csv: M1058


title: Bd21-3, Mutant, M1354, juvenile leaf tissue

description:
Library name: 569A1
Row name in SIEVE_M6_TPM.csv: M1354


title: Bd21-3, Mutant, M1196, juvenile leaf tissue

description:
Library name: 554A1
Row name in SIEVE_M6_TPM.csv: M1196


title: Bd21-3, Control, C24, juvenile leaf tissue

description:
Library name: 54A1
Row name in SIEVE_M6_TPM.csv: C24


title: Bd21-3, Mutant, M1047, juvenile leaf tissue

description:
Library name: 548A1
Row name in SIEVE_M6_TPM.csv: M1047


title: Bd21-3, Mutant, M0907, juvenile leaf tissue

description:
Library name: 547A1
Row name in SIEVE_M6_TPM.csv: M0907


title: Bd21-3, Mutant, M1082, juvenile leaf tissue

description:
Library name: 549A1
Row name in SIEVE_M6_TPM.csv: M1082


title: Bd21-3, Mutant, M0972, juvenile leaf tissue

description:
Library name: 560A1
Row name in SIEVE_M6_TPM.csv: M0972


title: Bd21-3, Mutant, M0929, juvenile leaf tissue

description:
Library name: 546A1
Row name in SIEVE_M6_TPM.csv: M0929


title: Bd21-3, Mutant, M1236, juvenile leaf tissue

description:
Library name: 544A1
Row name in SIEVE_M6_TPM.csv: M1236


title: Bd21-3, Mutant, M1265, juvenile leaf tissue

description:
Library name: 540A1
Row name in SIEVE_M6_TPM.csv: M1265


title: Bd21-3, Mutant, M0146, juvenile leaf tissue

description:
Library name: 53A1
Row name in SIEVE_M6_TPM.csv: M0146


title: Bd21-3, Mutant, M1349, juvenile leaf tissue

description:
Library name: 545A1
Row name in SIEVE_M6_TPM.csv: M1349


title: Bd21-3, Mutant, M1025, juvenile leaf tissue

description:
Library name: 542A1
Row name in SIEVE_M6_TPM.csv: M1025


title: Bd21-3, Mutant, M1303, juvenile leaf tissue

description:
Library name: 543A1
Row name in SIEVE_M6_TPM.csv: M1303


title: Bd21-3, Mutant, M1283, juvenile leaf tissue

description:
Library name: 539A1
Row name in SIEVE_M6_TPM.csv: M1283


title: Bd21-3, Mutant, M1105, juvenile leaf tissue

description:
Library name: 552A1
Row name in SIEVE_M6_TPM.csv: M1105


title: Bd21-3, Mutant, M1155, juvenile leaf tissue

description:
Library name: 538A1
Row name in SIEVE_M6_TPM.csv: M1155


title: Bd21-3, Mutant, M1289, juvenile leaf tissue

description:
Library name: 537A1
Row name in SIEVE_M6_TPM.csv: M1289


title: Bd21-3, Mutant, M1227, juvenile leaf tissue

description:
Library name: 541A1
Row name in SIEVE_M6_TPM.csv: M1227


title: Bd21-3, Mutant, M1074, juvenile leaf tissue

description:
Library name: 556A1
Row name in SIEVE_M6_TPM.csv: M1074


title: Bd21-3, Mutant, M1179, juvenile leaf tissue

description:
Library name: 536A1
Row name in SIEVE_M6_TPM.csv: M1179


title: Bd21-3, Mutant, M0931, juvenile leaf tissue

description:
Library name: 535A1
Row name in SIEVE_M6_TPM.csv: M0931


title: Bd21-3, Mutant, M1070, juvenile leaf tissue

description:
Library name: 533A1
Row name in SIEVE_M6_TPM.csv: M1070


title: Bd21-3, Mutant, M1072, juvenile leaf tissue

description:
Library name: 532A1
Row name in SIEVE_M6_TPM.csv: M1072


title: Bd21-3, Mutant, M1347, juvenile leaf tissue

description:
Library name: 530A1
Row name in SIEVE_M6_TPM.csv: M1347


title: Bd21-3, Mutant, M0145, juvenile leaf tissue

description:
Library name: 52A1
Row name in SIEVE_M6_TPM.csv: M0145


title: Bd21-3, Mutant, M1234, juvenile leaf tissue

description:
Library name: 527A1
Row name in SIEVE_M6_TPM.csv: M1234


title: Bd21-3, Mutant, M1067, juvenile leaf tissue

description:
Library name: 528A1
Row name in SIEVE_M6_TPM.csv: M1067


title: Bd21-3, Mutant, M1355, juvenile leaf tissue

description:
Library name: 522A1
Row name in SIEVE_M6_TPM.csv: M1355


title: Bd21-3, Mutant, M1226, juvenile leaf tissue

description:
Library name: 521A1
Row name in SIEVE_M6_TPM.csv: M1226


title: Bd21-3, Mutant, M1268, juvenile leaf tissue

description:
Library name: 526A1
Row name in SIEVE_M6_TPM.csv: M1268


title: Bd21-3, Mutant, M1209, juvenile leaf tissue

description:
Library name: 524A1
Row name in SIEVE_M6_TPM.csv: M1209


title: Bd21-3, Control, C56, juvenile leaf tissue

description:
Library name: 525A1
Row name in SIEVE_M6_TPM.csv: C56


title: Bd21-3, Mutant, M1307, juvenile leaf tissue

description:
Library name: 519A1
Row name in SIEVE_M6_TPM.csv: M1307


title: Bd21-3, Mutant, M0508, juvenile leaf tissue

description:
Library name: 51A1
Row name in SIEVE_M6_TPM.csv: M0508


title: Bd21-3, Mutant, M0916, juvenile leaf tissue

description:
Library name: 515A1
Row name in SIEVE_M6_TPM.csv: M0916


title: Bd21-3, Mutant, M0986, juvenile leaf tissue

description:
Library name: 513A1
Row name in SIEVE_M6_TPM.csv: M0986


title: Bd21-3, Mutant, M0958, juvenile leaf tissue

description:
Library name: 516A1
Row name in SIEVE_M6_TPM.csv: M0958


title: Bd21-3, Mutant, M1223, juvenile leaf tissue

description:
Library name: 514A1
Row name in SIEVE_M6_TPM.csv: M1223


title: Bd21-3, Mutant, M1282, juvenile leaf tissue

description:
Library name: 529A1
Row name in SIEVE_M6_TPM.csv: M1282


title: Bd21-3, Mutant, M1241, juvenile leaf tissue

description:
Library name: 517A1
Row name in SIEVE_M6_TPM.csv: M1241


title: Bd21-3, Mutant, M0923, juvenile leaf tissue

description:
Library name: 531A1
Row name in SIEVE_M6_TPM.csv: M0923


title: Bd21-3, Mutant, M1215, juvenile leaf tissue

description:
Library name: 510A1
Row name in SIEVE_M6_TPM.csv: M1215


title: Bd21-3, Mutant, M1231, juvenile leaf tissue

description:
Library name: 534A1
Row name in SIEVE_M6_TPM.csv: M1231


title: Bd21-3, Mutant, M1021, juvenile leaf tissue

description:
Library name: 509A1
Row name in SIEVE_M6_TPM.csv: M1021


title: Bd21-3, Mutant, M0921, juvenile leaf tissue

description:
Library name: 511A1
Row name in SIEVE_M6_TPM.csv: M0921


title: Bd21-3, Mutant, M0453, juvenile leaf tissue

description:
Library name: 50A1
Row name in SIEVE_M6_TPM.csv: M0453


title: Bd21-3, Mutant, M1143, juvenile leaf tissue

description:
Library name: 512A1
Row name in SIEVE_M6_TPM.csv: M1143


title: Bd21-3, Mutant, M1195, juvenile leaf tissue

description:
Library name: 523A1
Row name in SIEVE_M6_TPM.csv: M1195


title: Bd21-3, Mutant, M1093, juvenile leaf tissue

description:
Library name: 505A1
Row name in SIEVE_M6_TPM.csv: M1093


title: Bd21-3, Mutant, M0971, juvenile leaf tissue

description:
Library name: 507A1
Row name in SIEVE_M6_TPM.csv: M0971


title: Bd21-3, Control, C54, juvenile leaf tissue

description:
Library name: 504A1
Row name in SIEVE_M6_TPM.csv: C54


title: Bd21-3, Mutant, M1146, juvenile leaf tissue

description:
Library name: 503A1
Row name in SIEVE_M6_TPM.csv: M1146


title: Bd21-3, Mutant, M1309, juvenile leaf tissue

description:
Library name: 501A1
Row name in SIEVE_M6_TPM.csv: M1309


title: Bd21-3, Mutant, M1076, juvenile leaf tissue

description:
Library name: 502A1
Row name in SIEVE_M6_TPM.csv: M1076


title: Bd21-3, Mutant, M1313, juvenile leaf tissue

description:
Library name: 508A1
Row name in SIEVE_M6_TPM.csv: M1313


title: Bd21-3, Mutant, M0979, juvenile leaf tissue

description:
Library name: 500A1
Row name in SIEVE_M6_TPM.csv: M0979


title: Bd21-3, Mutant, M0167, juvenile leaf tissue

description:
Library name: 4A1
Row name in SIEVE_M6_TPM.csv: M0167


title: Bd21-3, Mutant, M0176, juvenile leaf tissue

description:
Library name: 49A1
Row name in SIEVE_M6_TPM.csv: M0176


title: Bd21-3, Mutant, M0941, juvenile leaf tissue

description:
Library name: 497A1
Row name in SIEVE_M6_TPM.csv: M0941


title: Bd21-3, Mutant, M1142, juvenile leaf tissue

description:
Library name: 496A1
Row name in SIEVE_M6_TPM.csv: M1142


title: Bd21-3, Mutant, M1218, juvenile leaf tissue

description:
Library name: 498A1
Row name in SIEVE_M6_TPM.csv: M1218


title: Bd21-3, Mutant, M1276, juvenile leaf tissue

description:
Library name: 492A1
Row name in SIEVE_M6_TPM.csv: M1276


title: Bd21-3, Mutant, M1263, juvenile leaf tissue

description:
Library name: 506A1
Row name in SIEVE_M6_TPM.csv: M1263


title: Bd21-3, Mutant, M0937, juvenile leaf tissue

description:
Library name: 493A1
Row name in SIEVE_M6_TPM.csv: M0937


title: Bd21-3, Mutant, M0998, juvenile leaf tissue

description:
Library name: 490A1
Row name in SIEVE_M6_TPM.csv: M0998


title: Bd21-3, Mutant, M1133, juvenile leaf tissue

description:
Library name: 494A1
Row name in SIEVE_M6_TPM.csv: M1133


title: Bd21-3, Mutant, M1165, juvenile leaf tissue

description:
Library name: 495A1
Row name in SIEVE_M6_TPM.csv: M1165


title: Bd21-3, Mutant, M0905, juvenile leaf tissue

description:
Library name: 489A1
Row name in SIEVE_M6_TPM.csv: M0905


title: Bd21-3, Mutant, M1183, juvenile leaf tissue

description:
Library name: 483A1
Row name in SIEVE_M6_TPM.csv: M1183


title: Bd21-3, Mutant, M1013, juvenile leaf tissue

description:
Library name: 491A1
Row name in SIEVE_M6_TPM.csv: M1013


title: Bd21-3, Mutant, M1193, juvenile leaf tissue

description:
Library name: 480A1
Row name in SIEVE_M6_TPM.csv: M1193


title: Bd21-3, Mutant, M1233, juvenile leaf tissue

description:
Library name: 482A1
Row name in SIEVE_M6_TPM.csv: M1233


title: Bd21-3, Mutant, M1343, juvenile leaf tissue

description:
Library name: 520A1
Row name in SIEVE_M6_TPM.csv: M1343


title: Bd21-3, Mutant, M1144, juvenile leaf tissue

description:
Library name: 485A1
Row name in SIEVE_M6_TPM.csv: M1144


title: Bd21-3, Mutant, M1009, juvenile leaf tissue

description:
Library name: 499A1
Row name in SIEVE_M6_TPM.csv: M1009


title: Bd21-3, Mutant, M0373, juvenile leaf tissue

description:
Library name: 48A1
Row name in SIEVE_M6_TPM.csv: M0373


title: Bd21-3, Mutant, M1200, juvenile leaf tissue

description:
Library name: 481A1
Row name in SIEVE_M6_TPM.csv: M1200


title: Bd21-3, Mutant, M1172, juvenile leaf tissue

description:
Library name: 478A1
Row name in SIEVE_M6_TPM.csv: M1172


title: Bd21-3, Mutant, M0969, juvenile leaf tissue

description:
Library name: 476A1
Row name in SIEVE_M6_TPM.csv: M0969


title: Bd21-3, Mutant, M1084, juvenile leaf tissue

description:
Library name: 475A1
Row name in SIEVE_M6_TPM.csv: M1084


title: p53_psi_KiKi_MEFs_3

city: Toronto

first: Liam

middle: D

last: Hendrikse

state: Ontario

address: 610 University Ave

department: Princess Margaret Cancer Centre

country: Canada

institute: University Health Network

description: Library name: A6

data_processing:
Reads were QC'ed using fastqc (v 0.11.5) and multiqc (v 0.8) and aligned to the GRCm38 (mm10) mouse reference using STAR (v 2.5.2b).
Raw gene counts and transcripts per million (TPM) normalization were determined using RSEM (v 1.3.0).
Assembly: mm10
Supplementary files format and content: p53psi_all_RSEM_counts.txt: tab-delimited file containing RSEM outputs; expected gene counts, TPM normalized counts, and FPKM normalized counts for each sample.

source_name: Sarcoma

extract_protocol:
Tumor tissues from p53null or p53psiKI/KI E1A/RASV12 MEFs were collected in biological triplicates (for each genotype) and lysed in RNA lysis buffer and processed with PureLink™ RNA Mini Kit (Thermo Fisher) according to the manufacturer’s instructions. Total RNA (1ug) was resuspended in DNase- and RNase-free water.
mRNA library construction, quality control, and sequencing was performed by Novogene Co., Ltd. (Beijing, China).

treatment_protocol: Mouse embryonic fibroblasts were collected from p53null and p53psiKI/KI embryos between E14.5-E16.5. MEFs were transformed with the E1A and H-RasV12 oncogenes.

value: Sarcoma

value: mouse embryonic fibroblasts

value: Male

tag: genetic modification


title: Bd21-3, Mutant, M1251, juvenile leaf tissue

description:
Library name: 477A1
Row name in SIEVE_M6_TPM.csv: M1251


title: Bd21-3, Mutant, M0991, juvenile leaf tissue

description:
Library name: 473A1
Row name in SIEVE_M6_TPM.csv: M0991