title: Prj161-L3-28

description:
Adult male mouse dosed every 4 days for 28 days
28

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

value: day

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

value: degree celsius

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

tag: water

value: Aquavive water (Innovive)

tag: feed name

value: Harlan Teklad 22/5 Rodent Diet 8940

tag: feed description

tag: feed source

value: Harlan Teklad

tag: feed catalog no

tag: ad lib feeding

value: Yes

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

value: Accustandard

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

value: Room temperature

tag: vehicle substance

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration route ontology

tag: dose

tag: dose unit

tag: dose unit ontology

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

tag: euthaniasia method ontology


title: MCF7 cells biological replicate 3 [MCF7-S0-5-86]

status: Public on Aug 05 2022

type: RNA

city: Odense M

first: Carla

last: Alves

address: Fioniavej 36, 2. sal

country: Denmark

institute: SDU

description: Gene expression data from parental sensitive MCF-7 cells

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on human transcriptome array 2.0 (HTA). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.

data_processing: Data analysis was conducted in Transcriptome Analysis Console (Thermo Fisher Scientific). A fold change ≤ -2 or ≥2, p-value < 0.05, and false discovery rate (FDR) < 0.05 cutoffs were set to select differentially expressed genes between MCF-7 and LetR cells

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: MCF7 cells

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).

growth_protocol: MCF-7 cells were cultured in phenol red-free Dulbecco’s modified Eagle medium (D-MEM)/F-12 (Gibco) supplemented with 1% heat-inactivated fetal bovine serum (FBS, Gibco), 2 mM glutamine (Gibco) and 6 ng/ml insulin (Sigma-Aldrich). LetR cells  were cultured in a similar medium but were supplemented with 10% NCS (Sigma-Aldrich) in addition to 100nM testosterone and 1μM Letrozole.

extract_protocol: Total RNA was extracted and purified with RNeasy Mini kit (Qiagen) according to the manufacturer´s instructions.

treatment_protocol: supplementary file

tag: cell line source

value: MCF-7 cells

tag: cell type

value: Parental sensitive cells


title: K-562 STORM-seq cell 34 [D7]

type: SRA

city: Grand Rapids

first: Benjamin

middle: K

last: Johnson

state: MI

address: 333 Bostwick Ave NE

country: USA

institute: Van Andel Institute

library_source: transcriptomic

data_processing:
Base calling was done by Illumina NextSeq or NovaSeq Control Software (NCS) v2.0 and output of NCS was demultiplexed and converted to FASTQ format with Illumina Bcl2fastq v1.9.0.
Subsampling was performed using seqtk (v1.3-r107-dirty) on the trimmed fastqs to the various read depths.
Demultiplexed fastqs were then trimmed using TrimGalore (v0.6.0) and cutadapt (v2.10) with the following parameters: --illumina, --trim-n, --length 36, --paired, --clip_R2 3, --fastqc. Pre- and post-trimming quality control was assessed using FastQC (v0.11.9).
Trimmed fastqs were processed using salmon quant (v1.3.0) to either a reference genome (K-562) or a spliced and unscpliced reference transcriptome (FTE; generated with eisaR v1.3.0) with the following parameters: -l ISR, --seqBias, --gcBias, --posBias, --softclip, --numBootstraps 100.
SummarizedExperiment objects were generated using tximeta (v1.6.3) in R (4.0.0). Gene counts were summarized using the tximeta function summarizeToGene with the argument countsFromAbundance = "lengthScaledTPM".
Genome_build: GRCh38 release 101
Supplementary_files_format_and_content: Tab-delimited TPM matrices

source_name: K-562 STORM-seq cell

growth_protocol: The K562 cell line was purchased from the American Type Culture Collection (ATCC; CCL-243). Cells were cultured in RPMI 1640 medium supplemented with 10% FBS and 1% Penicillin/Streptomycin (Gibco). Cells were maintained at 37oC in 5% CO2 and sub-cultured at 1:5 ratio every 3-4 days.

extract_protocol:
BULK TOTAL RNA: Total RNA from 5 million K562 cells were isolated using TRIzol (Invitrogen). STORM-seq: total RNA extraction is integrated into the library preparation protocol with Takara Bio's lysis buffer that comes in the SMART-seq Stranded kit (Takara Bio, USA)
BULK TOTAL RNA: Libraries were prepared by the Van Andel Genomics Core from 500 ng of total RNA using the KAPA RNA HyperPrep Kit with RiboseErase (v1.16) (Kapa Biosystems, Wilmington, MA USA). RNA was sheared to 300-400 bp. Prior to PCR amplification, cDNA fragments were ligated to Illumina UDIs. Quality and quantity of the finished libraries were assessed using a combination of Agilent DNA High Sensitivity chip (Agilent Technologies, Inc.) and QuantiFluor® dsDNA System (Promega Corp., Madison, WI, USA). SMART-seq STRANDED: Single-cell K562 libraries were prepared using the SSS Kit, following the manufacturer instructions with modifications. Following sorting into PBS, Takara Shearing Master Mix was added to all samples to a final concentration recommended by the kit. The samples underwent 6 minute fragmentation time at 85 °C. Section B step 4 in the protocol was modified to account for the incorporation of UDIs (Takara SMARTer RNA Unique Dual Index Kit-96A, Takara Bio, USA). A total of 2 uL of each UDI was used instead of the recommended 1 uL each of the 5’ and 3’ PCR primers. For PCR1, 10 cycles of amplification were performed, followed by pooling according to Appendix A. The remainder of the protocol was performed according to manufacturer recommendations. STORM-seq: Single cells were prepared using the SMART-Seq Stranded Kit (Takara USA) on the SPT Labtech Mosquito (HV) at 1:6, then 1:4 dilutions relative to the recommended volumes for subsequent steps in the protocol. In contrast to the manually prepared K562 libraries, for the miniaturized protocol, cells were sorted into a 384-well plate (Eppendorf twin-tec) containing a combination of Shearing Master Mix plus PBS and immediately transferred to a thermocycler and fragmented for 3 minutes at 85 °C. Following 1st Strand Synthesis, PCR1 (10 cycles of amplification) was performed with the addition of SMARTer RNA Unique Dual Index Set A (Takara SMARTer RNA Unique Dual Index Kit-96A) instead of Takara 5’ and 3’ PCR Primers. Samples were pooled across rows into groups of 12 cells according to Appendix A: Pooling Strategy for Single-Cell Applications and depletion of ribosomal cDNA was performed as indicated. 13 cycles of amplification were performed for PCR2 and the final library was eluted in 13ul 10mM Tris-HCl pH 8.0.

treatment_protocol: None.

tag: cell line

tag: disease state

value: Chronic Myelogenous Leukemia

tag: treatment

tag: tissue source

value: Bone marrow

tag: gender

value: Female

tag: experiment type

value: STORM-seq


title: Prj161-L3-27

city: East Lansing

first: Tim

last: Zacharewski

state: Michigan

address: 1129 Farm Ln

department: Biochemistry and Molecular Biology, Integrative Toxicological Sciences

institute: Michigan State University

description:
Adult male mouse dosed every 4 days for 28 days
27

data_processing:
Read quality was assessed using FastQC v0.11.7 and adapter trimming was performed using Trimmomatic v0.39.
Alignment was performed with STAR v2.7.3a. Genome indices were created using Mus_musculus.GRCm39.dna.chromosome.fa and Mus_musculus.GRCm39.104.gtf.
Gene counts were determined using STAR v2.7.3a.
Assembly: mm10 (build 39)
Supplementary files format and content: Transformed counts were normalized using a semi-parametric approach (Eckel et al., 2004) and analyzed using an empirical Bayes method (Eckel et al., 2005).
Supplementary files format and content: Tab-delimited text files represent the number of aligned PE reads to each gene.

organism: Mus musculus

source_name: Liver

extract_protocol:
Frozen liver (~100 mg) was homogenized in 1 mL of TriZOL with chrome-steel beads using a Mixer Mill 300 (Life Sciences, Carlsbad, CA) for 4 minutes. Following, total RNA was extracted per the manufacturer’s instructions with an additional 5:1 phenol:chloroform extraction step (Sigma Aldrich, St. Louis, MO). RNA purity (260/280 ratio) and concentration (ng/µL) were assessed with a NanoDrop 1000 spectrophotometer. RNA quality was determined using an Agilent 2100 Bioanalyzer. All RNA samples had RNA integrity numbers (RINs) ≥7.
Library preparation was performed using a Ultra2 NEB RNA kit.

treatment_protocol: Mice were orally gavaged with TCDD in sesame oil vehicle every 4 days for 28 days.

tag: tissue

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

tag: Sex

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

value: percent

tag: humidity unit ontology

tag: light cycle

tag: cage type

value: Innovive cage

tag: bedding

value: ALHPA-dri (Shepherd Specialty Papers)

tag: water

tag: feed name

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

tag: vehicle substance

value: sesame oil

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

value: milliliter

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

tag: administration route

value: oral gavage

tag: administration route ontology

value: microgram per kilogram

value: Carbon dioxide euthanasia

tag: library kit

value: NEBNext Ultra II


title: K-562 STORM-seq cell 33 [D6]

tag: cell line

tag: disease state

tag: treatment

tag: tissue source

tag: gender

tag: experiment type


title: Prj161-L3-25

description:
Adult male mouse dosed every 4 days for 28 days
25

tag: tissue

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

value: day

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

value: degree celsius

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

tag: water

value: Aquavive water (Innovive)

tag: feed name

value: Harlan Teklad 22/5 Rodent Diet 8940

tag: feed description

tag: feed source

value: Harlan Teklad

tag: feed catalog no

tag: ad lib feeding

value: Yes

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

value: Accustandard

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

value: Room temperature

tag: vehicle substance

tag: vehicle substance ontology

tag: dose

tag: dose unit

tag: dose unit ontology

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

tag: euthaniasia method ontology


title: Prj161-L3-35

description:
Adult male mouse dosed every 4 days for 28 days
35

tag: tissue

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

tag: Sex

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

value: percent

tag: humidity unit ontology

tag: light cycle

tag: cage type

value: Innovive cage

tag: bedding

value: ALHPA-dri (Shepherd Specialty Papers)

tag: water

tag: feed name

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: administration volume

tag: administration volume unit

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

tag: administration route

tag: administration route ontology

tag: library kit


title: Prj161-L3-24

description:
Adult male mouse dosed every 4 days for 28 days
24

tag: tissue

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

tag: Sex

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

tag: water

tag: feed name

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

tag: toxic substance molecular weight

tag: toxic substance vendor

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

tag: vehicle substance

value: sesame oil

tag: vehicle substance ontology

value: milliliter

value: oral gavage

tag: dose

tag: dose unit

value: microgram per kilogram

tag: dose unit ontology

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

tag: euthaniasia method ontology


title: K-562 STORM-seq cell 31 [D4]

tag: cell line

tag: disease state

value: Chronic Myelogenous Leukemia

tag: treatment

tag: tissue source

value: Bone marrow

tag: gender

value: Female

tag: experiment type

value: STORM-seq


title: K-562 STORM-seq cell 32 [D5]


title: Prj161-L3-22

description:
Adult male mouse dosed every 4 days for 28 days
22

tag: tissue

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

value: day

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

value: degree celsius

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

tag: water

value: Aquavive water (Innovive)

tag: feed name

value: Harlan Teklad 22/5 Rodent Diet 8940

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

tag: administration volume

tag: administration volume unit

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

tag: administration route

tag: administration route ontology

value: Carbon dioxide euthanasia

tag: library kit

value: NEBNext Ultra II


title: K-562 STORM-seq cell 30 [D3]

tag: cell line

tag: disease state

tag: treatment

tag: tissue source

tag: gender

tag: experiment type


title: K-562 STORM-seq cell 29 [D2]


title: Prj161-L3-20

description:
Adult male mouse dosed every 4 days for 28 days
20

tag: tissue

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

tag: Sex

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

value: percent

tag: humidity unit ontology

tag: light cycle

tag: cage type

value: Innovive cage

tag: bedding

value: ALHPA-dri (Shepherd Specialty Papers)

tag: water

tag: feed name

tag: feed description

tag: feed source

value: Harlan Teklad

tag: feed catalog no

tag: ad lib feeding

value: Yes

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

value: Accustandard

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

value: Room temperature

tag: vehicle substance

tag: vehicle substance ontology

tag: dose

tag: dose unit

tag: dose unit ontology

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

tag: euthaniasia method ontology


title: Prj161-L3-21

description:
Adult male mouse dosed every 4 days for 28 days
21

tag: tissue

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

tag: Sex

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

tag: water

tag: feed name

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

value: sesame oil

tag: administration volume

tag: administration volume unit

value: milliliter

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

tag: administration route

value: oral gavage

tag: administration route ontology

value: microgram per kilogram

tag: library kit


title: K-562 STORM-seq cell 28 [D1]

tag: cell line

tag: disease state

value: Chronic Myelogenous Leukemia

tag: treatment

tag: tissue source

value: Bone marrow

tag: gender

value: Female

tag: experiment type

value: STORM-seq


title: LetR3 cells biological replicate 3 [LetR3-2]

description: Gene expression data from letrozole resistant cells clone 3

source_name: LetR3 cells

tag: cell line source

value: MCF-7 cells

tag: cell type

value: Letrozole resistant cells clone 3


title: LetR3 cells biological replicate 1 [LetR3-14]


title: MCF7 cells biological replicate 1 [MCF7-S0-5-84]

value: Parental sensitive cells


title: MCF-7_1

data_processing: Data analysis was conducted in Transcriptome Analysis Console (Thermo Fisher Scientific). A fold change ≤ -3 or ≥3, p-value < 0.05, and false discovery rate (FDR) < 0.05 cutoffs were set to select differentially expressed genes between MCF-7 and MPiF-R cells

source_name: MCF-7 cells

growth_protocol: MCF-7 cells were cultured in phenol red-free Dulbecco’s modified Eagle medium (D-MEM)/F-12 (Gibco) supplemented with 1% heat-inactivated fetal bovine serum (FBS, Gibco), 2 mM glutamine (Gibco) and 6 ng/ml insulin (Sigma-Aldrich). MPiF-R cells were maintained in the same growth media supplemented with 10 µM PI3Ki and 100 nM fulvestrant.

treatment_protocol: The combined PI3Ki, alpelisib, and fulvestrant-resistant cell line, MPiFR, was established through long-term treatment with 100 nM fulvestrant and increasing concentrations of PI3Ki (0.5-10 µM) over a period of 4 months.


title: MCF7 cells biological replicate 2 [MCF7-S0-5-85]


title: LetR1 cells biological replicate 2 [LetR1-19]

description: Gene expression data from letrozole resistant cells clone 1

source_name: LetR1 cells

value: Letrozole resistant cells clone 1


title: K-562 STORM-seq cell 27 [C9]


title: LetR3 cells biological replicate 2 [LetR3-27]


title: THP1 polarized to M2 lncRNA silenced Rep3

city: Barcelona

first: Luis

last: Hernandez

address: Rossello 153, CEK building

department: Molecular Pathology

country: Spain

institute: IDIBAPS

description:
TM2 SIL3
Gene expression data from THP1 cells polarized to M2 macrophages but nucleofected with a combo of gapmer to silence the AC136475.5 lncRNA.

hyb_protocol: Arrays were washed and stained in the Affymetrix Fluidics Station 450.

scan_protocol: Arrays were scanned using the Affymetrix GeneChip Scanner 3000 System.

data_processing: The data were analyzed with Transcriptome Analysis Console 4.0 using Analysis Version 2; The gene level differential expression was performed with the SST-RMA algorithm.

label: Biotin

source_name: THP1 macrophages

label_protocol: Samples were processed using the Affymetrix 3' IVT Pico reagent Kit. Starting from 10ng of purified total RNA, a reverse transcription reaction is initiated at the Poly-A tail as well as throughout the entire length of RNA to capture both coding and multiple forms of non-coding RNA. Complementary RNA (cRNA) amplification is achieved using low-cycle PCR followed by linear amplification using T7 in vitro transcription (IVT) technology. The cRNA is then converted to biotinylated double-stranded cDNA (dscDNA) hybridization targets for unbiased coverage of the transcriptome. The ds-cDNA is fragmented and labeled and hybridized (3µg) onto the Affymetrix GeneChip Human Clariom S array.

growth_protocol: RPMI1640, 10%FBS, 1%Penicilin/streptomicine at 37ºC and 5% CO2.

extract_protocol: Total RNAs were extracted using RNeasy mini kit (Qiagen) according to the manufacturer's instructions.

treatment_protocol:
PMA after seeding was left 24h for macrophage differentiation prior to any nucleofection or polarization to specific macrophage subtypes.
After nucleofection THP1 macrophages were polarized along 48h using IL4 and IL13 (25ng/ml each).

value: Monocytic cell line

tag: gapmer

value: AC136475.5 lncRNA

tag: macrophage polarization


title: Prj161-L3-19

description:
Adult male mouse dosed every 4 days for 28 days
19

tag: tissue

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

value: day

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

value: degree celsius

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

value: percent

tag: humidity unit ontology

tag: light cycle

tag: cage type

value: Innovive cage

tag: bedding

value: ALHPA-dri (Shepherd Specialty Papers)

tag: water

value: Aquavive water (Innovive)

tag: feed name

value: Harlan Teklad 22/5 Rodent Diet 8940

tag: feed description

tag: feed source

value: Harlan Teklad

tag: feed catalog no

tag: ad lib feeding

value: Yes

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

tag: vehicle substance

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

tag: administration volume unit ontology

tag: administration interval

tag: dose

tag: dose unit

tag: dose unit ontology

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

value: Carbon dioxide euthanasia

tag: euthaniasia method ontology

value: NEBNext Ultra II


title: THP1 polarized to M2 control

description:
TM2
Gene expression data from THP1 cells polarized to M1 macrophages.

treatment_protocol:
PMA after seeding was left 24h for macrophage differentiation prior to any nucleofection or polarization to specific macrophage subtypes.
THP1 macrophages were polarized along 48h using IL4 and IL13 (25ng/ml each).

tag: cell line

tag: cell type

tag: gapmer

tag: macrophage polarization


title: Prj161-L3-18

description:
Adult male mouse dosed every 4 days for 28 days
18

tag: tissue

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

tag: Sex

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

tag: water

tag: feed name

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

value: Accustandard

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

value: Room temperature

tag: vehicle substance

value: sesame oil

tag: vehicle substance ontology

value: milliliter

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

tag: administration route

value: oral gavage

tag: administration route ontology

value: microgram per kilogram

tag: library kit


title: LetR1 cells biological replicate 3 [LetR1-20]

tag: cell line source

value: MCF-7 cells

tag: cell type

value: Letrozole resistant cells clone 1


title: hiK_13

city: Exeter

first: Nick

last: Owens

state: Exeter

address: Barrack Road

country: United Kingdom

institute: University of Exeter Medical School

data_processing:
Stranded paired end 100bp RNA-seq reads were aligned to the Xt9.1 genome with ERCC spikes using RSEM-STAR pipeline, with additional options "--seed 1618 --calc-pme --calc-ci --estimate-rspd --paired-end". ERCC spikes were used to build a GC-bias dinucleotide correction model applied to all transcripts. Gene level corrected quantifications provided.
Genome_build: Xt9.1
Supplementary_files_format_and_content: Tab delimited file with corrected quantifications for all genes.

molecule: polyA RNA

organism: Xenopus tropicalis

source_name: Whole Embryo

growth_protocol: We induced ovulation, performed IVF, and raised embryos in 1/9xMR, We staged X. tropicalis embryos according to Nieuwkoop and Faber.

extract_protocol:
Samples were immediately frozen and kept at -80ºC until homogenized in 100 ml Trizol spiked with ERCC RNA Spike-In Mix. 10 ml ERCC RNA Spike-In Mix (Thermo Fisher Scientiﬁc) were first diluted into a final volume of 870 ml DEPC water and then further diluted 1:10 into Trizol, which was used to homogenize the samples. Total RNA was purified from the embryo Trizol homogenates according to the manufacturer’s recommendations. After isopropanol precipitation, RNAs were resuspended in DEPC water and any contaminating genomic DNA was removed by overnight precipitation in 5M LiCl at 4ºC. RNA was subsequently pelleted and washed twice with 70% ethanol. All RNAs were resuspended in DEPC water (2 ml/embryo), and finally, RNA quality was verified by Bioanalyzer.
RNA libraries were prepared for sequencing using standard Illumina protocols.

treatment_protocol: Embryos were kept at 25ºC either in 1/9X MR or in 10 mM KCl solution, and 10 embryos were harvested per time point and condition every 30 min starting at stage 8 and concluding at stage 13.

tag: treatment

value: hi K+ condition

tag: time


title: K-562 STORM-seq cell 26 [C8]

tag: cell line

tag: disease state

value: Chronic Myelogenous Leukemia

tag: tissue source

value: Bone marrow

tag: gender

value: Female

tag: experiment type

value: STORM-seq


title: LX2 siBNC2 #3

city: Lille

first: Jérôme

last: Eeckhoute

address: Bâtiment J&K, Faculté de Médecine de Lille-Pôle Recherche, Boulevard du Professeur Leclerc

country: France

institute: CNRS

description: Transcriptomic LX2 siBNC2

hyb_protocol: Affymetrix GeneChip Hybridization Oven 640 for 16h at 45°C and 60 rpm on HAT 2.0 Chip. GeneChips were washed and stained in the Affymetrix Fluidics.

scan_protocol: Affymetrix GeneChip Scanner 7G and Affymetrix GeneChip Command Console software (AGCC).

data_processing: Normalization was performed using the apt-probeset-summarize tool of Affymetrix Power Tools (https://www.affymetrix.com/support/developer/powertools/changelog/index.html) using “gc correction+scale intensity+rma”. Normalization level was set to “Core genes”. The data obtained are log2-transformed.

source_name: LX2 cells transfected with siBNC2

label_protocol: RNA were processed using Affymetrix GeneChip® WT PLUS Reagent Kit.

growth_protocol: Cells were cultured in Dulbecco’s Modified Eagle Medium (DMEM) supplemented with 5% fetal bovine serum (FCS, Deutscher).

extract_protocol: RNA was extracted using Trizol and reverse transcribed using the High Capacity cDNA Reverse Transcription kit (Applied Biosystems, USA). Total RNA was checked for quantity and quality using the Agilent 2100 Bioanalyzer (Agilent Biotechnologies).

treatment_protocol: Cells were transfected using JetPrime (Polyplus transfection) with 20 nM siRNA targeting BNC2 (siBNC2, Thermo Fisher Scientific, Cat# 4392420 s29452) or a non-targeting control siRNA (siCTRL, Thermo Fisher Scientific Cat# 4390844)


title: THP1 polarized to M2 lncRNA silenced Rep2

description:
TM2 SIL2
Gene expression data from THP1 cells polarized to M2 macrophages but nucleofected with a combo of gapmer to silence the AC136475.5 lncRNA.

value: Monocytic cell line

tag: gapmer

value: AC136475.5 lncRNA

tag: macrophage polarization


title: LX2 siBNC2 #1

description: Transcriptomic LX2 siBNC2


title: THP1 polarized to M2 scrambled control Rep3

description:
TM2 NEG3
Gene expression data from THP1 cells polarized to M2 macrophages but nucleofected with a scrambled gapmer.

value: Scrambled


title: K-562 STORM-seq cell 25 [C7]


title: LX2 siCTRL #4

description: Transcriptomic LX2 siCTRL

source_name: LX2 cells transfected with siCTRL

value: siCTRL


title: hiK_12


title: LX2 siBNC2 #4

description: Transcriptomic LX2 siBNC2


title: LetR1 cells biological replicate 1 [LetR1-10]


title: hiK_11


title: hiK_10


title: K-562 STORM-seq cell 24 [C6]


title: MNA4

city: Boston

first: Gerburg

last: Wulf

state: MA

address: 330 Brookine Ave

department: Medicine

institute: Beth Israel Deaconess Medical Center

data_processing:
STAR aligner (version 2.5.2b) was used to align reads to the mouse genome (GRCm38.p5) using annotation from Ensembl release 99 with reads-per-gene count enabled as described in the manual.
The DEseq2 package was for differential expression analysis using R statistical software (version 3.6.0).
For expression level visualizations, we used regularized log transformation of the count data, as described in the package vignette.
To test whether there were any sets of related genes in the list of differentially expressed genes we used the gage-package in combination with gene sets from MSigDB.
Correction for multiple testing was performed using false discovery rate with the Benjamini-Hochberg method.
Assembly: mm10
Supplementary files format and content: comma-separated values files for each Sample

source_name: bone marrow

growth_protocol: cells were cultured in RPMI-1640 supplemented with 10% fetal bovine serum (FBS) and antibiotics and cytokines IL4&IL10&MCSF in humidified atmosphere with 5% CO2 at 37∘C

extract_protocol:
RNA was harvested using Trizol. 1.5 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using Illumina Stranded mRNA Prep kit following manufacturer's protocols.

treatment_protocol: Cells were treated with DMSO/olaparib/MNA for 6 days

tag: tissue

value: bone marrow

value: Bone Marrow derived Macrophage

tag: genotype

value: wildtype

value: MNA 6 days


title: MNA3


title: K-562 STORM-seq cell 23 [C5]


title: LX2 siBNC2 #2

description: Transcriptomic LX2 siBNC2


title: THP1 polarized to M1 control

description:
TM1
Gene expression data from THP1 cells polarized to M2 macrophages.

treatment_protocol:
PMA after seeding was left 24h for macrophage differentiation prior to any nucleofection or polarization to specific macrophage subtypes.
THP1 macrophages were polarized along 48h using IFNg (50ng/ml) and LPS (15ng/ml).


title: MNA2


title: K-562 STORM-seq cell 22 [C4]


title: THP1 polarized to M2 lncRNA silenced Rep1

description:
TM2 SIL1
Gene expression data from THP1 cells polarized to M2 macrophages but nucleofected with a combo of gapmer to silence the AC136475.5 lncRNA.


title: LX2 siCTRL #3

description: Transcriptomic LX2 siCTRL


title: Prj161-L3-17

description:
Adult male mouse dosed every 4 days for 28 days
17

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

value: day

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

value: degree celsius

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

value: percent

tag: humidity unit ontology

tag: light cycle

tag: cage type

value: Innovive cage

tag: bedding

value: ALHPA-dri (Shepherd Specialty Papers)

tag: water

value: Aquavive water (Innovive)

tag: feed name

value: Harlan Teklad 22/5 Rodent Diet 8940

tag: feed description

tag: feed source

value: Harlan Teklad

tag: feed catalog no

tag: ad lib feeding

value: Yes

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

value: Accustandard

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

value: Room temperature

tag: vehicle substance

value: sesame oil

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

value: milliliter

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

value: oral gavage

tag: dose

tag: dose unit

tag: dose unit ontology

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

value: Carbon dioxide euthanasia

tag: euthaniasia method ontology

value: NEBNext Ultra II


title: Prj161-L3-16

description:
Adult male mouse dosed every 4 days for 28 days
16

tag: tissue

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

tag: water

tag: feed name

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

tag: vehicle substance

tag: administration route

tag: administration route ontology

value: microgram per kilogram

tag: library kit


title: Prj161-L3-13

description:
Adult male mouse dosed every 4 days for 28 days
13

tag: tissue

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

tag: Sex

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

value: day

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

value: degree celsius

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

value: percent

tag: humidity unit ontology

tag: light cycle

tag: cage type

value: Innovive cage

tag: bedding

tag: water

tag: feed name

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

tag: dose

tag: dose unit

tag: dose unit ontology

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

tag: euthaniasia method ontology


title: Prj161-L3-15

description:
Adult male mouse dosed every 4 days for 28 days
15

tag: tissue

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

tag: Sex

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

value: ALHPA-dri (Shepherd Specialty Papers)

tag: water

value: Aquavive water (Innovive)

tag: feed name

value: Harlan Teklad 22/5 Rodent Diet 8940

tag: feed description

tag: feed source

value: Harlan Teklad

tag: feed catalog no

tag: ad lib feeding

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

tag: vehicle substance

tag: administration route

tag: administration route ontology

tag: library kit


title: hiK_9

tag: treatment

value: hi K+ condition

tag: time


title: THP1 polarized to M2 scrambled control Rep2

description:
TM2 NEG2
Gene expression data from THP1 cells polarized to M2 macrophages but nucleofected with a scrambled gapmer.

tag: cell line

tag: cell type

value: Monocytic cell line

tag: gapmer

value: Scrambled

tag: macrophage polarization


title: LX2 siCTRL #2

description: Transcriptomic LX2 siCTRL

value: siCTRL


title: THP1 polarized to M2 scrambled control Rep1

description:
TM2 NEG1
Gene expression data from THP1 cells polarized to M2 macrophages but nucleofected with a scrambled gapmer.


title: MNA1

tag: tissue

value: bone marrow

value: Bone Marrow derived Macrophage

tag: genotype

value: wildtype

value: MNA 6 days


title: hiK_8


title: Prj161-L3-12

description:
Adult male mouse dosed every 4 days for 28 days
12

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

tag: water

tag: feed name

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

value: Yes

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

value: Accustandard

value: Room temperature

value: sesame oil

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

value: milliliter

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

value: oral gavage

tag: dose

tag: dose unit

value: microgram per kilogram

tag: dose unit ontology

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

value: Carbon dioxide euthanasia

tag: euthaniasia method ontology

value: NEBNext Ultra II


title: OLA4

tag: tissue

tag: cell type

tag: genotype

tag: treatment

value: ola 6 days


title: LX2 siCTRL #1

description: Transcriptomic LX2 siCTRL

value: siCTRL


title: K-562 STORM-seq cell 21 [C3]

tag: cell line

tag: disease state

value: Chronic Myelogenous Leukemia

tag: tissue source

value: Bone marrow

tag: gender

value: Female

tag: experiment type

value: STORM-seq


title: K-562 STORM-seq cell 20 [C2]


title: hiK_7

value: hi K+ condition

tag: time


title: K-562 STORM-seq cell 19 [C1]


title: OLA3

value: bone marrow

value: Bone Marrow derived Macrophage

value: wildtype


title: hiK_6


title: Prj161-L3-08

description: Adult male mouse dosed every 4 days for 28 days

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

value: day

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

value: degree celsius

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

value: percent

tag: humidity unit ontology

tag: light cycle

tag: cage type

value: Innovive cage

tag: bedding

value: ALHPA-dri (Shepherd Specialty Papers)

tag: water

value: Aquavive water (Innovive)

tag: feed name

value: Harlan Teklad 22/5 Rodent Diet 8940

tag: feed description

tag: feed source

value: Harlan Teklad

tag: feed catalog no

tag: ad lib feeding

value: Yes

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

value: Accustandard

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

value: Room temperature

tag: vehicle substance

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

tag: administration route

tag: administration route ontology

tag: dose

tag: dose unit

tag: library kit


title: Prj161-L3-07

tag: tissue

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

tag: Sex

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

tag: water

tag: feed name

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

tag: toxic substance catalog number

tag: toxic substance purity

value: sesame oil

value: milliliter

value: oral gavage

value: microgram per kilogram

tag: dose unit ontology

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

value: Carbon dioxide euthanasia

tag: euthaniasia method ontology

value: NEBNext Ultra II


title: K-562 STORM-seq cell 18 [B9]

tag: cell line

tag: disease state

value: Chronic Myelogenous Leukemia

tag: treatment

tag: tissue source

value: Bone marrow

tag: gender

value: Female

tag: experiment type

value: STORM-seq


title: OLA2

tag: tissue

value: bone marrow

tag: cell type

value: Bone Marrow derived Macrophage

tag: genotype

value: wildtype

value: ola 6 days


title: Prj161-L3-03

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

value: day

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

value: degree celsius

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

value: percent

tag: humidity unit ontology

tag: light cycle

tag: cage type

value: Innovive cage

tag: bedding

value: ALHPA-dri (Shepherd Specialty Papers)

tag: water

value: Aquavive water (Innovive)

tag: feed name

value: Harlan Teklad 22/5 Rodent Diet 8940

tag: feed description

tag: feed source

value: Harlan Teklad

tag: feed catalog no

tag: ad lib feeding

value: Yes

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

tag: toxic substance catalog number

tag: toxic substance lot

tag: toxic substance storage

tag: vehicle substance

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

tag: administration route

tag: administration route ontology

tag: dose

tag: dose unit

tag: library kit


title: hiK_4

tag: treatment

value: hi K+ condition

tag: time


title: hiK_5


title: DMSO4

tag: tissue

value: bone marrow

tag: cell type

tag: genotype

value: dmso 6 days


title: K-562 STORM-seq cell 17 [B8]

tag: cell line

tag: disease state

value: Chronic Myelogenous Leukemia

tag: tissue source

value: Bone marrow

tag: gender

value: Female

tag: experiment type

value: STORM-seq


title: Prj161-L3-11

description:
Adult male mouse dosed every 4 days for 28 days
11

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

tag: humidity unit ontology

tag: light cycle

tag: cage type

tag: bedding

tag: water

tag: feed name

tag: feed description

tag: feed source

tag: feed catalog no

tag: ad lib feeding

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

value: Accustandard

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

value: Room temperature

tag: vehicle substance

value: sesame oil

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

value: milliliter

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

value: oral gavage

value: microgram per kilogram

tag: dose unit ontology

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

value: Carbon dioxide euthanasia

tag: euthaniasia method ontology

value: NEBNext Ultra II


title: hiK_3

tag: treatment

value: hi K+ condition

tag: time


title: OLA1

tag: tissue

value: bone marrow

tag: cell type

value: Bone Marrow derived Macrophage

tag: genotype

value: wildtype

value: ola 6 days


title: K-562 STORM-seq cell 16 [B7]

tag: cell line

tag: disease state

value: Chronic Myelogenous Leukemia

tag: tissue source

value: Bone marrow

tag: gender

value: Female

tag: experiment type

value: STORM-seq


title: hiK_2


title: DMSO2

value: dmso 6 days


title: DMSO3


title: hiK_1


title: K-562 STORM-seq cell 14 [B5]


title: K-562 STORM-seq cell 15 [B6]


title: K-562 STORM-seq cell 13 [B4]


title: x15_lskvf_pbs3

city: Charlottesville

first: Golam

last: Mohi

state: Virginia

address: 1340 Jefferson Park Ave

department: Biochemistry and Molecular Genetics

institute: University of Virginia

data_processing:
Raw reads were adapter trimmed and >Q30 quality filtered with fastp 0.20.0
Trimmed reads were aligned using HISAT2 2.0.1 to Mus musculus GRCm38
Aligned reads were converted to BAM via Samtools 1.10
Gene counts were generated using featureCounts 2.0.2
Differential gene expression was done using DESeq2
Genome_build: GRCm38 Build 100

source_name: BM LSK Cells

growth_protocol: Mesenchymal stromal cells (MSCs) were generated from C57BL/6 mice bone marrow. Cells were cultured for 21 days in DMEM medium supplemented with 10% FBS, non-essential amino acids solution (1X) and and antibiotics (penicillin/streptomycin)

extract_protocol:
Bone marrow cells were harvested and lineage depleted by MACS mouse lineage depletion kit then sorted by flow cytometry.
Library prep was done according to protocol of NEB rRNA depletion kit and then NEBNext Ultra II RNA Library Prep Kit for Illumina

treatment_protocol: Mice were treated with either PBS or IL-1β (0.5 g/dose; 3 doses/week) via intraperitoneal (IP) injection for 16 weeks.Mesenchymal stromal cells (MSCs) were  either PBS or IL-1β (5ng/ml) for 72h.

tag: strain

value: Bone Marrow

value: LSK

value: PBS


title: DMSO1


title: UIC_13

value: control


title: x14_mpvf_il1b2

source_name: BM MP(LK) Cells

value: MP(LK)


title: K-562 STORM-seq cell 12 [B3]


title: CIH_3

city: Beijing

first: yanru

last: duan

state: Beijing

address: Beijing, Chaoyang

country: China

institute: Capital Medical University

data_processing:
Illumina software used for basecalling.
Raw data(raw reads) of fastq format were firstly processed through in-houseperl scripts.In this step,clean data(clean reads) were obtained by removing reads containing adapter,reads containing ploy-N and low quality reads from raw data.
Reference genome and gene model annotation files were downloaded from genome website directly.Index of the reference genome was built using paired-end clean reads were aligned to the reference genome using HiSeq 2500.
Feature Counts v1.5.0-p3 was used to count the reads numbers mapped to each gene.And then FPKM of each gene was calculated based on the length of the gene and readscount mapped to this gene.
Assembly: Differential expression analysis of two conditions/groups was performed using the DESeq R package (1.8.3).
Supplementary files format and content: Mus_musculus.GRCm38
Supplementary files format and content: tab_delimited text files include FPKM values for each Sample

growth_protocol: 3T3L1 cells were maintained in DMEM supplemented with 10% fetal bovine serum (FBS) and antibiotics in humidified atmosphere with 5% CO2 at 37C

extract_protocol:
RNA was harvested using NEB Next Ultra Directional RNA Library Prep Kit. 1.3 ug of total RNA was used for the construction of sequencing libraries.
The RNA Library was generated using a NEB Next Ultra Directional RNA Library Prep Kit for Illumina (#E7530L, NEB, Ispawich, USA)

treatment_protocol:
3T3l1 cells was induced by treatment of insulin
After two days, this was changed to maintenance growth media consisting of DMEM-basal medium, and 0.1μM insulin. The maintenance media were fully changed every other day until day 8. After 8–12 hours, the media was then changed back to maintenance growth media.

value: adipocytes

value: WT

value: Chronic intermittent hypoxia


title: UIC_12


title: CIH_2


title: Prj161-L3-02

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

value: day

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

value: degree celsius

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

value: percent

tag: humidity unit ontology

tag: light cycle

tag: cage type

value: Innovive cage

tag: bedding

value: ALHPA-dri (Shepherd Specialty Papers)

tag: water

value: Aquavive water (Innovive)

tag: feed name

value: Harlan Teklad 22/5 Rodent Diet 8940

tag: feed description

tag: feed source

value: Harlan Teklad

tag: feed catalog no

tag: ad lib feeding

value: Yes

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

value: Accustandard

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

value: Room temperature

tag: vehicle substance

value: sesame oil

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

value: milliliter

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

tag: administration route

value: oral gavage

tag: administration route ontology

tag: dose

tag: dose unit

value: microgram per kilogram

tag: dose unit ontology

value: Carbon dioxide euthanasia

tag: library kit

value: NEBNext Ultra II


title: K-562 STORM-seq cell 11 [B2]

tag: cell line

tag: disease state

value: Chronic Myelogenous Leukemia

tag: treatment

tag: tissue source

value: Bone marrow

tag: gender

value: Female

tag: experiment type

value: STORM-seq


title: x16_mpvf_pbs3

tag: strain

tag: tissue

value: Bone Marrow

tag: cell type

value: MP(LK)

value: PBS


title: K-562 STORM-seq cell 10 [B1]


title: UIC_11

value: control

tag: time


title: CIH_1

value: adipocytes

tag: genotype

value: WT

value: Chronic intermittent hypoxia


title: Prj161-L3-01

value: Liver

tag: metadata template url

tag: source ontology

tag: organism ontology

tag: strain ontology

tag: organism supplier

value: Charles Rivers Laboratories

tag: Sex

value: Male

tag: sex ontology

tag: acclimation period

tag: acclimation period unit

value: day

tag: acclimation period unit ontology

tag: study start age

tag: study end age

tag: age unit

tag: age unit ontology

tag: average vivarium temperature

tag: temperature unit

value: degree celsius

tag: temperature unit ontology

tag: average vivarium humidity

tag: humidity unit

value: percent

tag: humidity unit ontology

tag: light cycle

tag: cage type

value: Innovive cage

tag: bedding

value: ALHPA-dri (Shepherd Specialty Papers)

tag: water

value: Aquavive water (Innovive)

tag: feed name

value: Harlan Teklad 22/5 Rodent Diet 8940

tag: feed description

tag: feed source

value: Harlan Teklad

tag: feed catalog no

tag: ad lib feeding

value: Yes

tag: toxic substance

tag: toxic substance ontology

tag: cas number

tag: smile string

tag: formula

tag: inchi code

tag: toxic substance molecular weight

tag: toxic substance vendor

value: Accustandard

tag: toxic substance catalog number

tag: toxic substance purity

tag: toxic substance lot

tag: toxic substance storage

value: Room temperature

tag: vehicle substance

value: sesame oil

tag: vehicle substance ontology

tag: administration volume

tag: administration volume unit

tag: administration volume unit ontology

tag: administration interval

tag: administration interval unit

tag: administration interval unit ontology

tag: administration number

tag: administration route

tag: time point

tag: time point unit

tag: time point unit ontology

tag: euthaniasia method

tag: euthaniasia method ontology


title: x12_mpvf_pbs2

tag: strain

tag: tissue

value: Bone Marrow

tag: cell type

value: MP(LK)

tag: treatment

value: PBS


title: UIC_10

value: control

tag: time


title: Ctrl_3

tag: cell line

value: adipocytes

tag: genotype

value: WT


title: UIC_9


title: x10_lskvf_il1b2

value: LSK


title: x11_mpvf_pbs1


title: K-562 STORM-seq cell 9 [A9]

tag: disease state

value: Chronic Myelogenous Leukemia

tag: tissue source

value: Bone marrow

tag: gender

value: Female

tag: experiment type

value: STORM-seq


title: x9_lskvf_il1b1


title: Ctrl_2


title: Ctrl_1


title: UIC_7


title: K-562 STORM-seq cell 7 [A7]


title: x8_lskvf_pbs2


title: x13_mpvf_il1b1


title: UIC_8


title: K-562 STORM-seq cell 6 [A6]


title: x7_lskvf_pbs1


title: Normal Pool 2

city: Aarhus

first: Jacob

middle: Fog

last: Bentzon

state: Midtjylland

address: Palle Juul-Jensens Blvd. 99

department: Clinical Medicine

institute: Aarhus University

description: Pool from n=3 aortic arch inner curvatures

data_processing:
FastQC was used to evaluate quality of sequencing reads
Cutadapt was used to trim sequencing reads, eliminating Illumina adaptor remains, and to discard reads that were shorter than 30 bp
Trimmed reads were mapped against mouse transcriptome GRCm38.91, and gene expression levels were estimated with RSEM
Expected expression count matrices were processed with an analysis pipeline that used Bioconductor package limma for normalization (using TMM method) and differential expression testing.
Changes in gene expression were considered significant if associated with Benjamini and Hochberg adjusted p-value < 0.05.
Assembly: GRCm38
Supplementary files format and content: Tab-delimited text file include normalized TMM (trimmed mean of M) values as a measurements of gene-level transcript abundances in sample

source_name: inner curvature aortic arch

extract_protocol:
Total RNA was isolated from the inner curvature region of pre-atherosclerotic and normal aortic arches using the RNeasy Micro Kit (QIAGEN).
RNA libraries were prepared using the NEBNext Ultra II Directional RNA Library preparation kit (New England Biolabs) according to manufacturer’s instructions.

treatment_protocol: To obtain pre-atherosclerotic aortic arches, mice were subjected to rAAV-PCSK9 injection, high-cholesterol diet and Ctrl ASO treatment for 3.5 weeks. To obtain normal aortic arches, mice were subjected to rAAV-PCSK9 injection, high-cholesterol diet and Apob ASO treatment for 3.5 weeks. Inner curvature region was separated from the rest of the ascending aortic arch.

value: inner curvature aortic arch

value: wt C57BL/6

value: rAAV8-mD377Y-mPCSK9, High-cholesterol diet (S9167-E0150, Sniff), Apob ASO


title: Normal Pool 3


title: UIC_5


title: UIC_6


title: K-562 STORM-seq cell 5 [A5]


title: x5_msc_pbs3

source_name: BM MSC

value: MSC


title: Normal Pool 1


title: K-562 STORM-seq cell 4 [A4]


title: UIC_4


title: Pre-athero Pool 1

value: rAAV8-mD377Y-mPCSK9, High-cholesterol diet (S9167-E0150, Sniff), Ctrl ASO


title: K-562 STORM-seq cell 8 [A8]


title: K-562 STORM-seq cell 3 [A3]


title: UIC_3


title: x3_msc_il1b1


title: x4_msc_il1b2


title: K-562 STORM-seq cell 1 [A10]


title: UIC_2


title: x2_msc_pbs2


title: Pre-athero Pool 2

description: Pool from n=2 aortic arch inner curvatures


title: UIC_1


title: Pre-athero Pool 3


title: K-562 STORM-seq cell 2 [A2]


title: UA44 strain, P0 generation, rep3

status: Public on Aug 04 2022

city: Tuscaloosa

first: Guy

last: Caldwell

state: AL

address: 300 Hackberry Lane

department: Biological Sciences

institute: The University of Alabama

description:
U4_3_P0
Selection_Significant_DEGs.txt
Selection_Differential_analysis_results_all.txt
Selection_readcount.txt
Selection_fpkm.txt

data_processing:
Raw reads were filtered to remove adapters or low quality reads
HISAT2, version 2.1.0-beta, with a parameter of "mismatch=2" was used to map filtered sequenced reads to the reference genome.
HTSeq, version 0.6.1, with a parameter of "-m union" was used to quantify reads.
Differentially expressed genes were extracted using DESeq, version 1.10.1.
Assembly: PRJNA13758.WBPS13
Supplementary files format and content: tab-delimited text file with significant differentially expressed genes.
Supplementary files format and content: tab-delimited text file with all differential analysis results.
Supplementary files format and content: tab-delimited text file with readcounts for each gene.
Supplementary files format and content: tab-delimited text file with FPKM values.

organism: Caenorhabditis elegans

source_name: whole animal

growth_protocol: Worms were grown on large NGM plates seeded with OP50-1 E.coli and grown at 20°C

extract_protocol:
RNA was extracted by freezing and thawing samples in 500μL of Trizol 7 times, then vortexed and iced 7 times. Phases were separated with 100 μL choloform. After separation, the aqueous phase was added to an equal volume of 70% ethanol and subjected to the protocol outlined in the Qiagen RNeasy Micro Kit. RNA was eluted with 35μL of RNase-free water.
mRNA was enriched using oligo(dT) beads and then fragmented randomly in fragmentation buffer, followed by cDNA synthesis using random hexamers and reverse transcriptase. Then, a custom second-strand synthesis buffer (Illumina) was added with dNTPs, RNase H and Escherichia coli polymerase I. The final cDNA library was ready after a round of purification, terminal repair, A-tailing, ligation of sequencing adapters, size selection and PCR enrichment.

value: whole animal

tag: generation

tag: developmental stage

value: Day 6 post hatching

tag: biological replicate

value: a-synuclein overexpression


title: UA415 strain, P0 generation, rep1

description:
S_1_P0
Selection_Significant_DEGs.txt
Selection_Differential_analysis_results_all.txt
Selection_readcount.txt
Selection_fpkm.txt

value: a-synuclein overexpression with sid-1 mutant


title: UA44 strain, P0 generation, rep2

description:
U4_2_P0
Selection_Significant_DEGs.txt
Selection_Differential_analysis_results_all.txt
Selection_readcount.txt
Selection_fpkm.txt


title: Model-2

first: Zihui

last: Yu

address: 2 Yabao Road, Chaoyang District, Beijing

institute: Capital Institute of Pediatrics

data_processing:
The raw reads weretrimmed  through Trimmomatic (Trimmomatic-0.32) software using the default parameters
RNA-seq derived reads were aligned against mm10 genome assembly with hisat 2.1.0. SAM files were sorted and converted to BAM with samtools v1.4.
The remaining readings were consistent with the mouse reference genome (mm10) using HISAT2. For each sample, only unique map reads with map quality score ≥ 20 were reserved for subsequent analyses.
HT Seq Python package (version 0.9.1) was used to count the number of reads of a unique map for each gene.
R-package DEseq2 was used to determine the differentially expressed genes; fold-change cutoff 1.0, p value cut off 5 × 10−2.
Assembly: mm10

extract_protocol:
1 ug of total RNA was used for the construction of sequencing libraries.
The KAPA Stranded RNA-seq Library Preparation Kit was used to construct RNA-seq libraries according to the manufacturer’s instructions.

value: Mouse monocyte macrophage

value: treated with LPS


title: Control-2

value: treated with PBS


title: UA44 strain, P0 generation, rep1

description:
U4_1_P0
Selection_Significant_DEGs.txt
Selection_Differential_analysis_results_all.txt
Selection_readcount.txt
Selection_fpkm.txt


title: UA415 strain, P0 generation, rep3

description:
S_3_P0
Selection_Significant_DEGs.txt
Selection_Differential_analysis_results_all.txt
Selection_readcount.txt
Selection_fpkm.txt


title: Model-1


title: Control-1


title: exp4_idx1TTGCGAGCAT_idx2TTAGATTCCG

city: Seattle

first: Diego

last: Calderon

address: 3720 15th Ave NE

institute: University of Washington

data_processing:
For sci-RNA-seq processing, the read alignment and gene count matrix generation was performed as was done in earlier studies (Cao et al. 2020, 2019) with minor modifications: reads were mapped with STAR v2.7.3a to the dm6 drosophila genome and the BDGP6.28.102 gene annotation.
Genome_build: dm6
Supplementary_files_format_and_content: MM sparse matrix containing the sci-RNA-seq read count for genes (rows) by nuclei (cols).

organism: Drosophila melanogaster

source_name: whole embryo

extract_protocol:
Drosophila melanogaster embryos were collected as previously described (Sandmann, Jakobsen, and Furlong 2006; Cusanovich et al. 2018).
We performed sci-RNA-seq3 as previously described (Cao et al. 2019), except for using a Tn5 enzyme loaded with N7 adapter only. Several experiments were done and each one included samples from multiple time windows. Associated time-windows for nuclei batches were tracked through specific wells. Additionally, for a subset of the data we included mouse nuclei to serve as a control to determine the rate of cell doublets.

value: Drosophila embryo (0-20 hrs)


title: exp4_idx1TTGCGAGCAT_idx2TGATTCCTCA


title: exp4_idx1TTGCGAGCAT_idx2TCCGGTAATC


title: exp4_idx1TTGCGAGCAT_idx2TCTATAAGGA


title: exp4_idx1TTGCGAGCAT_idx2ACCAAGATCT


title: exp4_idx1TTCGAATATT_idx2GCTCTAACGA


title: exp4_idx1TTCGAATATT_idx2TCTAGAACTA


title: exp4_idx1TTCGAATATT_idx2CTCCGGTTCT


title: UA415 strain, P0 generation, rep2

description:
S_2_P0
Selection_Significant_DEGs.txt
Selection_Differential_analysis_results_all.txt
Selection_readcount.txt
Selection_fpkm.txt


title: exp4_idx1TTCGAATATT_idx2CCTAGCGCCT


title: exp4_idx1TTATTGAGGC_idx2GATTGCAGAC


title: exp4_idx1TTCGAATATT_idx2ACTCTCTCAA


title: exp4_idx1TCTTGAGGTT_idx2TCATCTCGAT


title: exp4_idx1TCTTGAGGTT_idx2CGTCCGTCCT


title: exp4_idx1TCTTGAGGTT_idx2GGACTCATTG


title: exp4_idx1TCTTGAGGTT_idx2CAAGTACTGG


title: AMN31-1

value: treated with LPS and anti-inflammatory compounds


title: exp4_idx1TCTTGAGGTT_idx2GTCATTGCGC


title: exp4_idx1TCTTGAGGTT_idx2ACTATCTTGA


title: exp4_idx1TCCTCTGCCG_idx2TCCGTCGCCA


title: exp4_idx1TCCTCTGCCG_idx2GCAACTGGCA


title: exp4_idx1TTGCGAGCAT_idx2TCGTAGGCTT


title: exp4_idx1TCCTCTGCCG_idx2GACCTCTCTG


title: exp4_idx1TCCTCTGCCG_idx2CAAGCTTGGC


title: exp4_idx1TCCTCTGCCG_idx2AGCGTCAATG


title: exp4_idx1TATAATAGTT_idx2TGCCAGATGG


title: exp4_idx1TTGCGAGCAT_idx2TATAACTTCC


title: exp4_idx1TATAATAGTT_idx2GGAACGATGG


title: exp4_idx1TTGCGAGCAT_idx2AGATCCTATA


title: exp4_idx1TATAATAGTT_idx2GACCTCCGCC


title: exp4_idx1TCTTGAGGTT_idx2TGGCCGCAAT


title: exp4_idx1TATAATAGTT_idx2CTGCTTCGAC


title: exp4_idx1TATAATAGTT_idx2CTCGTCTAGG


title: exp4_idx1TATAATAGTT_idx2AAGCCGGCTG


title: exp4_idx1GGTTATCGAA_idx2TTAACGTACC


title: exp4_idx1GGTTATCGAA_idx2GCTCTCGCCT


title: exp4_idx1TCTTGAGGTT_idx2CGACTACCAA


title: exp4_idx1GGTTATCGAA_idx2CTCGATGGAG


title: exp4_idx1GGTTATCGAA_idx2GTTCCGACGA


title: exp4_idx1TCCTCTGCCG_idx2TCGATATTGA


title: exp4_idx1GGCTTACTCC_idx2TTGGAGTCGG


title: exp4_idx1GGCTTACTCC_idx2GATCAGTCAT


title: exp4_idx1GGCTTACTCC_idx2CGATCATTAC


title: exp4_idx1GGCTTACTCC_idx2CCGTCGGAGG


title: exp4_idx1GGCTTACTCC_idx2AATTGCCTAC


title: exp4_idx1TCCTCTGCCG_idx2AACCTAGCTT


title: exp4_idx1GATTCTTGAA_idx2TGATAGAACG


title: exp4_idx1GGCTTACTCC_idx2AGGATTACCA


title: exp4_idx1GATTCTTGAA_idx2GTCGCTCAGT


title: exp4_idx1GGCTTACTCC_idx2CCTATAAGCT


title: exp4_idx1GATTCTTGAA_idx2CATGCATCTC


title: exp4_idx1GATTCTTGAA_idx2AGTTGCATCT


title: exp4_idx1GATTCTTGAA_idx2ACGAGGACCT


title: exp4_idx1TATAATAGTT_idx2AACGAGGCTA


title: exp4_idx1GGTTATCGAA_idx2CGCCGCCTCC


title: exp4_idx1ATGGCGCCTG_idx2GTTGACGGCC


title: exp4_idx1ATGGCGCCTG_idx2GACTAGTCTA


title: exp4_idx1ATGGCGCCTG_idx2CGGCGAGACC


title: exp4_idx1ATGGCGCCTG_idx2GGTCCAGGAG


title: exp4_idx1GGCTTACTCC_idx2ACCGTTACGA


title: exp3_idx1TTGGTAAGGA_idx2TGCCAGATGG


title: exp4_idx1ATGGCGCCTG_idx2CAAGATTAAG


title: exp3_idx1TTGGTAAGGA_idx2GCTCTAACGA


title: exp4_idx1ATGGCGCCTG_idx2AGGTCAATTA


title: exp4_idx1GATTCTTGAA_idx2TCATCTAATC


title: exp4_idx1ATGGCGCCTG_idx2CCAAGCTGAA


title: exp4_idx1GATTCTTGAA_idx2CTAACTCCAA


title: exp3_idx1TTGGTAAGGA_idx2GATGATCGTA


title: exp3_idx1TTGGTAAGGA_idx2TGAGGTAGAA


title: exp3_idx1TTGGTAAGGA_idx2CTGCTTCGAC


title: exp3_idx1TTGGTAAGGA_idx2GGAACGATGG


title: exp3_idx1TTGGTAAGGA_idx2CTGCAATCGC


title: exp3_idx1TTGGTAAGGA_idx2CTCGTCTAGG


title: exp3_idx1TTGGTAAGGA_idx2CTCCGGTTCT


title: exp4_idx1GATTCTTGAA_idx2CATTATTACC


title: exp3_idx1TTGGTAAGGA_idx2CGAGCTGCCA


title: exp3_idx1TTGGTAAGGA_idx2CCTAGCGCCT


title: exp3_idx1TTGGTAAGGA_idx2ACTTCCGAAT


title: exp4_idx1ATGGCGCCTG_idx2GAACTGCATC


title: exp3_idx1TTGGTAAGGA_idx2ACTGAATTCC


title: exp3_idx1TTGGTAAGGA_idx2ACGTTCAACC


title: exp3_idx1TTGGTAAGGA_idx2ACTCTCTCAA


title: exp3_idx1TTGGTAAGGA_idx2ACGCAACTCC


title: exp3_idx1TTGGTAAGGA_idx2TGATACGAGT


title: exp3_idx1TTGGTAAGGA_idx2TCTAGAACTA


title: exp3_idx1TTGGTAAGGA_idx2AAGCCGGCTG


title: exp3_idx1TTGGTAAGGA_idx2AACTTATAAG


title: exp3_idx1TTGGTAAGGA_idx2GACCTCCGCC


title: exp3_idx1TTGGTAAGGA_idx2AACGGACCAA


title: exp3_idx1TTGCGAGCAT_idx2TTAGATTCCG


title: exp3_idx1TTGCGAGCAT_idx2TCATCTAATC


title: exp3_idx1TTGGTAAGGA_idx2AACGAGGCTA


title: exp3_idx1TTGCGAGCAT_idx2TTGGTCATAA


title: exp3_idx1TTGCGAGCAT_idx2GTTGACGGCC


title: exp3_idx1TTGCGAGCAT_idx2TGGACTTGAC


title: exp3_idx1TTGCGAGCAT_idx2TGATTCCTCA


title: exp3_idx1TTGCGAGCAT_idx2GGTAGGTCTC


title: exp3_idx1TTGGTAAGGA_idx2CTCGGTCAAT


title: exp3_idx1TTGCGAGCAT_idx2TTGAGTATCA


title: exp3_idx1TTGCGAGCAT_idx2GAACTGCATC


title: exp3_idx1TTGCGAGCAT_idx2GGTCCAGGAG


title: exp3_idx1TTGCGAGCAT_idx2TGGCGTAGGT


title: exp3_idx1TTGCGAGCAT_idx2GACTAGTCTA


title: exp3_idx1TTGCGAGCAT_idx2CGGCGAGACC


title: exp3_idx1TTGCGAGCAT_idx2CGAGTTAGAG


title: exp3_idx1TTGCGAGCAT_idx2CATTATTACC


title: exp3_idx1TTGCGAGCAT_idx2CCAAGCTGAA


title: exp3_idx1TTGCGAGCAT_idx2AGGTCAATTA


title: exp3_idx1TTGCGAGCAT_idx2CAAGATTAAG


title: exp3_idx1TTGCGAGCAT_idx2ACTATCCGCA


title: exp3_idx1TTGCGAGCAT_idx2ACGAGGACCT


title: exp3_idx1TTGCGAGCAT_idx2CATGCATCTC


title: exp3_idx1TTGCGAGCAT_idx2ACCAAGATCT


title: exp3_idx1TTGCGAGCAT_idx2AAGATCCAAC


title: exp3_idx1TTGCCGTAGG_idx2TGCCAGATGG


title: exp3_idx1TTGCGAGCAT_idx2TCGTAGGCTT


title: exp3_idx1TTGCCGTAGG_idx2TGAGGTAGAA


title: exp3_idx1TTGCCGTAGG_idx2TCCGTCGCCA


title: exp3_idx1TTGCCGTAGG_idx2GATTGCAGAC


title: exp3_idx1TTGCCGTAGG_idx2GGAACGATGG


title: exp3_idx1TTGCCGTAGG_idx2GATGATCGTA


title: exp3_idx1TTGCCGTAGG_idx2GACCTCCGCC


title: exp3_idx1TTGCCGTAGG_idx2CTGCTTCGAC


title: exp3_idx1TTGCCGTAGG_idx2CTGCAATCGC


title: exp3_idx1TTGCCGTAGG_idx2CTCGGTCAAT


title: exp3_idx1TTGCCGTAGG_idx2CAAGCTTGGC


title: exp3_idx1TTGCCGTAGG_idx2CTCGTCTAGG


title: exp3_idx1TTGCCGTAGG_idx2CGAGCTGCCA


title: exp3_idx1TTGCCGTAGG_idx2ACTTCCGAAT


title: exp3_idx1TTGCCGTAGG_idx2ACGCAACTCC


title: exp3_idx1TTGCCGTAGG_idx2ACTGAATTCC


title: exp3_idx1TTGCCGTAGG_idx2AAGCCGGCTG


title: exp3_idx1TTGCCGTAGG_idx2AACGAGGCTA


title: exp3_idx1TTGCCGTAGG_idx2AACCTAGCTT


title: exp3_idx1TTGCCGTAGG_idx2AACGGACCAA


title: exp3_idx1TTCGAATATT_idx2TTGGAGTCGG


title: exp3_idx1TTCGAATATT_idx2TCGATATTGA


title: exp3_idx1TTCGAATATT_idx2GCTCTAACGA


title: exp3_idx1TTCGAATATT_idx2GCAACTGGCA


title: exp3_idx1TTCGAATATT_idx2GATTGCAGAC


title: exp3_idx1TTCGAATATT_idx2TCTAGAACTA


title: exp3_idx1TTCGAATATT_idx2GCTCTCGCCT


title: exp3_idx1TTCGAATATT_idx2CCTATAAGCT


title: exp3_idx1TTCGAATATT_idx2CCTAGCGCCT


title: exp3_idx1TTCGAATATT_idx2TCCGTCGCCA


title: exp3_idx1TTCGAATATT_idx2TTCTACGCCA


title: exp3_idx1TTCGAATATT_idx2GACCTCTCTG


title: exp3_idx1TTCGAATATT_idx2CTCGATGGAG


title: exp3_idx1TTCGAATATT_idx2AGGATTACCA


title: exp3_idx1TTCGAATATT_idx2ACTCTCTCAA


title: exp3_idx1TTCGAATATT_idx2ACCGTTACGA


title: exp3_idx1TTCGAATATT_idx2AGCGTCAATG


title: exp3_idx1TTCGAATATT_idx2CAAGCTTGGC


title: exp3_idx1TTCGAATATT_idx2AACTACCGAC


title: exp3_idx1TTCCGTCGAC_idx2TTGGAGTCGG


title: exp3_idx1TTCCGTCGAC_idx2TCGATATTGA


title: exp3_idx1TTCGAATATT_idx2AACCTAGCTT


title: exp3_idx1TTCCGTCGAC_idx2TTCTACGCCA


title: exp3_idx1TTCCGTCGAC_idx2GCTCTCGCCT


title: exp3_idx1TTCCGTCGAC_idx2TCCGTCGCCA


title: exp3_idx1TTCCGTCGAC_idx2GCAACTGGCA


title: exp3_idx1TTCCGTCGAC_idx2GATCAGTCAT


title: exp3_idx1TTCCGTCGAC_idx2GACCGTAGCA


title: exp3_idx1TTCCGTCGAC_idx2CGCCGCCTCC


title: exp3_idx1TTCCGTCGAC_idx2GATTGCAGAC


title: exp3_idx1TTCCGTCGAC_idx2GACCTCTCTG


title: exp3_idx1TTCCGTCGAC_idx2CCGTCGGAGG


title: exp3_idx1TTCCGTCGAC_idx2CCTATAAGCT


title: exp3_idx1TTCCGTCGAC_idx2CAAGCTTGGC


title: exp3_idx1TTCCGTCGAC_idx2CGATCATTAC


title: exp3_idx1TTCCGTCGAC_idx2AGCGTCAATG


title: exp3_idx1TTATTGAGGC_idx2TGATTCCTCA


title: exp3_idx1TTCCGTCGAC_idx2AACTACCGAC


title: exp3_idx1TTCCGTCGAC_idx2AATTGCCTAC


title: exp3_idx1TTCCGTCGAC_idx2AGGATTACCA


title: exp3_idx1TTATTGAGGC_idx2TCTATAAGGA


title: exp3_idx1TTATTGAGGC_idx2GATACCTAAG


title: exp3_idx1TTCCGTCGAC_idx2AACCTAGCTT


title: exp3_idx1TTATTGAGGC_idx2CGAAGGACGA


title: exp3_idx1TTATTGAGGC_idx2TATAACTTCC


title: exp3_idx1TGGACGACTA_idx2TTGGAGTCGG


title: exp3_idx1TTATTGAGGC_idx2CCAGGTCTAC


title: exp3_idx1TGGACGACTA_idx2TGAGGTAGAA


title: exp3_idx1TGGACGACTA_idx2TCTAGAACTA


title: exp3_idx1TTATTGAGGC_idx2GGCTAATTAA


title: exp3_idx1TTATTGAGGC_idx2AGATCCTATA


title: exp3_idx1TTATTGAGGC_idx2ACCAAGATCT


title: exp3_idx1TGGACGACTA_idx2GCAACTGGCA


title: exp3_idx1TGGACGACTA_idx2GCTCTAACGA


title: exp3_idx1TGGACGACTA_idx2TCCGTCGCCA


title: exp3_idx1TGGACGACTA_idx2GATGATCGTA


title: exp3_idx1TTATTGAGGC_idx2TCGTAGGCTT


title: exp3_idx1TGGACGACTA_idx2CTGCAATCGC


title: exp3_idx1TGGACGACTA_idx2CTCGGTCAAT


title: exp3_idx1TGGACGACTA_idx2CTCCGGTTCT


title: exp3_idx1TTATTGAGGC_idx2TCCGGTAATC


title: exp3_idx1TGGACGACTA_idx2CGATCATTAC


title: exp3_idx1TGGACGACTA_idx2CCTATAAGCT


title: exp3_idx1TTCCGTCGAC_idx2ACCGTTACGA


title: exp3_idx1TGGACGACTA_idx2CCTAGCGCCT


title: exp3_idx1TGGACGACTA_idx2TCGATATTGA


title: exp3_idx1TGGACGACTA_idx2CAAGCTTGGC


title: exp3_idx1TGGACGACTA_idx2CCGTCGGAGG


title: exp3_idx1TGGACGACTA_idx2AGGATTACCA


title: exp3_idx1TGGACGACTA_idx2TGATACGAGT


title: exp3_idx1TGGACGACTA_idx2GACCTCTCTG


title: exp3_idx1TGGACGACTA_idx2CGAGCTGCCA


title: exp3_idx1TGGACGACTA_idx2ACTCTCTCAA


title: exp3_idx1TGGACGACTA_idx2ACTTCCGAAT


title: exp3_idx1TGGACGACTA_idx2ACCGTTACGA


title: exp3_idx1TGGACGACTA_idx2ACTGAATTCC


title: exp3_idx1TGGACGACTA_idx2AATTGCCTAC


title: exp3_idx1TGGACGACTA_idx2ACGTTCAACC


title: exp3_idx1TGGACGACTA_idx2GATTGCAGAC


title: exp3_idx1TGGACGACTA_idx2GATCAGTCAT


title: exp3_idx1TGGACGACTA_idx2AACTTATAAG


title: exp3_idx1TGGACGACTA_idx2AACGGACCAA


title: exp3_idx1TGGACGACTA_idx2AACCTAGCTT


title: exp3_idx1TCTTGAGGTT_idx2TCATCTCGAT


title: exp3_idx1TCTTGAGGTT_idx2TGGCCGCAAT


title: exp3_idx1TCTTGAGGTT_idx2CCAAGCTGAA


title: exp3_idx1TCTTGAGGTT_idx2CGACTACCAA


title: exp3_idx1TCTTGAGGTT_idx2GACTAGTCTA


title: exp3_idx1TCCTCTGCCG_idx2TGATAGAACG


title: exp3_idx1TCCTCTGCCG_idx2TTGGTCATAA


title: exp3_idx1TCCTCTGCCG_idx2GTCGCTCAGT


title: exp3_idx1TCCTCTGCCG_idx2GGTAGGTCTC


title: exp3_idx1TCTTGAGGTT_idx2ACTATCTTGA


title: exp3_idx1TCTTGAGGTT_idx2CAAGTACTGG


title: exp3_idx1TCTTGAGGTT_idx2GGACTCATTG


title: exp3_idx1TCCTCTGCCG_idx2TCATCTAATC


title: exp3_idx1TCTTGAGGTT_idx2GTCATTGCGC


title: exp3_idx1TCTTGAGGTT_idx2CGTCCGTCCT


title: exp3_idx1TCTTGAGGTT_idx2AGGTCAATTA


title: exp3_idx1TCTTGAGGTT_idx2GAACTGCATC


title: exp3_idx1TCTTGAGGTT_idx2GTTGACGGCC


title: exp3_idx1TCTTGAGGTT_idx2CAAGATTAAG


title: exp3_idx1TCCTCTGCCG_idx2CTAACTCCAA


title: exp3_idx1TCTTGAGGTT_idx2GGTCCAGGAG


title: exp3_idx1TCCTCTGCCG_idx2TTGAGTATCA


title: exp3_idx1TCTTGAGGTT_idx2CGGCGAGACC


title: exp3_idx1TATTAGACTT_idx2TTGGTCATAA


title: exp3_idx1TCCTCTGCCG_idx2AGTTGCATCT


title: exp3_idx1TATTAGACTT_idx2TTGAGTATCA


title: exp3_idx1TTATTGAGGC_idx2TTAGATTCCG


title: exp3_idx1TCCTCTGCCG_idx2CATGCATCTC


title: exp3_idx1TCCTCTGCCG_idx2CGAGTTAGAG


title: exp3_idx1TCCTCTGCCG_idx2CATTATTACC


title: exp3_idx1TATTAGACTT_idx2TGGCCGCAAT


title: exp3_idx1TATTAGACTT_idx2TGGACTTGAC


title: exp3_idx1TATTAGACTT_idx2TGATAGAACG


title: exp3_idx1TATTAGACTT_idx2TCATCTAATC


title: exp3_idx1TATTAGACTT_idx2TGGCGTAGGT


title: exp3_idx1TATTAGACTT_idx2GGACTCATTG


title: exp3_idx1TATTAGACTT_idx2GTCGCTCAGT


title: exp3_idx1TATTAGACTT_idx2CTAACTCCAA


title: exp3_idx1TATTAGACTT_idx2CGACTACCAA


title: exp3_idx1TATTAGACTT_idx2CATTATTACC


title: exp3_idx1TATTAGACTT_idx2CATGCATCTC


title: exp3_idx1TATTAGACTT_idx2AGTTGCATCT


title: exp3_idx1TATTAGACTT_idx2CGTCCGTCCT


title: exp3_idx1TATTAGACTT_idx2GTCATTGCGC


title: exp3_idx1TATTAGACTT_idx2ACGAGGACCT


title: exp3_idx1TATAATAGTT_idx2TGCCAGATGG


title: exp3_idx1TATTAGACTT_idx2ACTATCCGCA


title: exp3_idx1TATTAGACTT_idx2CGAGTTAGAG


title: exp3_idx1TATTAGACTT_idx2ACTATCTTGA


title: exp3_idx1TATTAGACTT_idx2AAGATCCAAC


title: exp3_idx1TATTAGACTT_idx2CAAGTACTGG


title: exp3_idx1TATAATAGTT_idx2GACCTCCGCC


title: exp3_idx1TATAATAGTT_idx2GTTCCGACGA


title: exp3_idx1TATAATAGTT_idx2GGAACGATGG


title: exp3_idx1TATAATAGTT_idx2CTCGTCTAGG


title: exp3_idx1TATAATAGTT_idx2CTGCTTCGAC


title: exp3_idx1TATTAGACTT_idx2GGTAGGTCTC


title: exp3_idx1TATTAGACTT_idx2TCATCTCGAT


title: exp3_idx1TATAATAGTT_idx2AAGCCGGCTG


title: exp3_idx1TATAATAGTT_idx2AACGAGGCTA


title: exp3_idx1TAGTAAGCCG_idx2TTAGATTCCG


title: exp3_idx1TAGTAAGCCG_idx2TGATTCCTCA


title: exp3_idx1TAGTAAGCCG_idx2TCTATAAGGA


title: exp3_idx1TCCTCTGCCG_idx2ACGAGGACCT


title: exp3_idx1TAGTAAGCCG_idx2TCGTAGGCTT


title: exp3_idx1TAGTAAGCCG_idx2GAACTGCATC


title: exp3_idx1TAGTAAGCCG_idx2TATAACTTCC


title: exp3_idx1TAGTAAGCCG_idx2CGAAGGACGA


title: exp3_idx1TAGTAAGCCG_idx2GACTAGTCTA


title: exp3_idx1TAGTAAGCCG_idx2GGCTATGACT


title: exp3_idx1TAGTAAGCCG_idx2GATACCTAAG


title: exp3_idx1TAGTAAGCCG_idx2TCCGGTAATC


title: exp3_idx1TAGTAAGCCG_idx2ATAAGAGGCG


title: exp3_idx1TAGTAAGCCG_idx2ATAGGATATG


title: exp3_idx1TAGTAAGCCG_idx2GTTGACGGCC


title: exp3_idx1TAGTAAGCCG_idx2CGGCGAGACC


title: exp3_idx1TAGTAAGCCG_idx2GGCTAATTAA


title: exp3_idx1TAGTAAGCCG_idx2CAAGATTAAG


title: exp3_idx1TAGTAAGCCG_idx2AGGTCAATTA


title: exp3_idx1TAGTAAGCCG_idx2CCAAGCTGAA


title: exp3_idx1TAGTAAGCCG_idx2CCAGGTCTAC


title: exp3_idx1TAGTAAGCCG_idx2AGATCCTATA


title: exp3_idx1TAGTAAGCCG_idx2AGTCCGCGGA


title: exp3_idx1TATAATAGTT_idx2ACGCAACTCC


title: exp3_idx1TAGTAAGCCG_idx2ACCAAGATCT


title: exp3_idx1TAGGTAACTT_idx2TGATACGAGT


title: exp3_idx1TAGGTAACTT_idx2GATGATCGTA


title: exp3_idx1TAGTAAGCCG_idx2GGTCCAGGAG


title: exp3_idx1TAGGTAACTT_idx2CTCGGTCAAT


title: exp3_idx1TAGGTAACTT_idx2CTCCGGTTCT


title: exp3_idx1TAGGTAACTT_idx2ACTCTCTCAA


title: exp3_idx1TAGGTAACTT_idx2AACGGACCAA


title: exp3_idx1TAGGTAACTT_idx2AACTTATAAG


title: exp3_idx1GTAGGCTGCA_idx2TGCCAGATGG


title: exp3_idx1GTAGGCTGCA_idx2TCTAGAACTA


title: exp3_idx1GTAGGCTGCA_idx2TTCTACGCCA


title: exp3_idx1GTAGGCTGCA_idx2GCTCTAACGA


title: exp3_idx1GTAGGCTGCA_idx2TGATACGAGT


title: exp3_idx1TAGGTAACTT_idx2ACGTTCAACC


title: exp3_idx1GTAGGCTGCA_idx2GACCGTAGCA


title: exp3_idx1GTAGGCTGCA_idx2CTGCTTCGAC


title: exp3_idx1GTAGGCTGCA_idx2CTCCGGTTCT


title: exp3_idx1GTAGGCTGCA_idx2CCTAGCGCCT


title: exp3_idx1GTAGGCTGCA_idx2CTCGTCTAGG


title: exp3_idx1GTAGGCTGCA_idx2GCTCTCGCCT


title: exp3_idx1GTAGGCTGCA_idx2GACCTCCGCC


title: exp3_idx1GTAGGCTGCA_idx2ACGTTCAACC


title: exp3_idx1TAGGTAACTT_idx2TCTAGAACTA


title: exp3_idx1TAGGTAACTT_idx2GCTCTAACGA


title: exp3_idx1TAGGTAACTT_idx2TGAGGTAGAA


title: exp3_idx1GTAGGCTGCA_idx2ACGCAACTCC


title: exp3_idx1GTAGGCTGCA_idx2AAGCCGGCTG


title: exp3_idx1GTAGGCTGCA_idx2AACTTATAAG


title: exp3_idx1TAGGTAACTT_idx2CCTAGCGCCT


title: exp3_idx1GTAGGCTGCA_idx2AACTACCGAC


title: exp3_idx1GTAGGCTGCA_idx2AACGAGGCTA


title: exp3_idx1GTAGGCTGCA_idx2GGAACGATGG


title: exp3_idx1GTAGCAGCTA_idx2TTGGTCATAA


title: exp3_idx1GTAGCAGCTA_idx2TGGCGTAGGT


title: exp3_idx1GTAGCAGCTA_idx2TGATTCCTCA


title: exp3_idx1GTAGCAGCTA_idx2TGGACTTGAC


title: exp3_idx1GTAGCAGCTA_idx2TCGTAGGCTT


title: exp3_idx1GTAGCAGCTA_idx2TCTATAAGGA


title: exp3_idx1GTAGGCTGCA_idx2ACTCTCTCAA


title: exp3_idx1GTAGCAGCTA_idx2TCCGGTAATC


title: exp3_idx1GTAGCAGCTA_idx2TTGAGTATCA


title: exp3_idx1GTAGCAGCTA_idx2GTCGCTCAGT


title: exp3_idx1GTAGCAGCTA_idx2GGCTATGACT


title: exp3_idx1GTAGCAGCTA_idx2GATACCTAAG


title: exp3_idx1GTAGCAGCTA_idx2CTAACTCCAA


title: exp3_idx1GTAGCAGCTA_idx2GGCTAATTAA


title: exp3_idx1GTAGCAGCTA_idx2CCAGGTCTAC


title: exp3_idx1GTAGCAGCTA_idx2CGAGTTAGAG


title: exp3_idx1GTAGCAGCTA_idx2TATAACTTCC


title: exp3_idx1GTAGCAGCTA_idx2CATTATTACC


title: exp3_idx1GTAGCAGCTA_idx2GGTAGGTCTC


title: exp3_idx1GTAGCAGCTA_idx2ATAGGATATG


title: exp3_idx1GTAGCAGCTA_idx2CATGCATCTC


title: exp3_idx1GTAGCAGCTA_idx2ATAAGAGGCG


title: exp3_idx1GTAGCAGCTA_idx2AGTCCGCGGA


title: exp3_idx1GTAGCAGCTA_idx2AGTTGCATCT


title: exp3_idx1GTAGCAGCTA_idx2TTAGATTCCG


title: exp3_idx1GTAGCAGCTA_idx2AGATCCTATA


title: exp3_idx1TGGACGACTA_idx2AGCGTCAATG


title: exp3_idx1GTAGCAGCTA_idx2TGATAGAACG


title: exp3_idx1GTAGCAGCTA_idx2TCATCTAATC


title: exp3_idx1GGTTATCGAA_idx2GGAACGATGG


title: exp3_idx1GGTTATCGAA_idx2TGCCAGATGG


title: exp3_idx1GGTTATCGAA_idx2GACCGTAGCA


title: exp3_idx1GGTTATCGAA_idx2CTGCTTCGAC


title: exp3_idx1GGTTATCGAA_idx2AAGCCGGCTG


title: exp3_idx1GGTTATCGAA_idx2CTCGTCTAGG


title: exp3_idx1GGTTATCGAA_idx2ACGCAACTCC


title: exp3_idx1GGTTATCGAA_idx2AACGAGGCTA


title: exp3_idx1GGTTATCGAA_idx2AACTACCGAC


title: exp3_idx1GGCTTACTCC_idx2GGAACGATGG


title: exp3_idx1GGCTTACTCC_idx2TGAGGTAGAA


title: exp3_idx1GTAGCAGCTA_idx2ACTATCCGCA


title: exp3_idx1GGCTTACTCC_idx2TGCCAGATGG


title: exp3_idx1GGCTTACTCC_idx2GACCTCCGCC


title: exp3_idx1GTAGCAGCTA_idx2ACGAGGACCT


title: exp3_idx1GGCTTACTCC_idx2GATGATCGTA


title: exp3_idx1GGCTTACTCC_idx2GATCAGTCAT


title: exp3_idx1GTAGCAGCTA_idx2CGAAGGACGA


title: exp3_idx1GTAGCAGCTA_idx2AAGATCCAAC


title: exp3_idx1GGCTTACTCC_idx2CTGCTTCGAC


title: exp3_idx1GGTTATCGAA_idx2TTAACGTACC


title: exp3_idx1GGCTTACTCC_idx2CTCGTCTAGG


title: exp3_idx1GGTTATCGAA_idx2TTCTACGCCA


title: exp3_idx1GTAGCAGCTA_idx2ACCAAGATCT


title: exp3_idx1GGTTATCGAA_idx2GACCTCCGCC


title: exp3_idx1GGTTATCGAA_idx2GCTCTCGCCT


title: exp3_idx1GGCTTACTCC_idx2CTCCGGTTCT


title: exp3_idx1GGCTTACTCC_idx2CGATCATTAC


title: exp3_idx1GGCTTACTCC_idx2CTCGGTCAAT


title: exp3_idx1GGTTATCGAA_idx2CTCGATGGAG


title: exp3_idx1GGCTTACTCC_idx2CCGTCGGAGG


title: exp3_idx1GGCTTACTCC_idx2CGAGCTGCCA


title: exp3_idx1GGCTTACTCC_idx2ACTTCCGAAT


title: exp3_idx1GGCTTACTCC_idx2ACTGAATTCC


title: exp3_idx1GGCTTACTCC_idx2TGATACGAGT


title: exp3_idx1GGCTTACTCC_idx2ACGCAACTCC


title: exp3_idx1GGCTTACTCC_idx2AAGCCGGCTG


title: exp3_idx1GGCTTACTCC_idx2AACGGACCAA


title: exp3_idx1GGCTTACTCC_idx2CTGCAATCGC


title: exp3_idx1GGCTTACTCC_idx2AACTTATAAG


title: exp3_idx1GCTTGAAGAG_idx2TGGCGTAGGT


title: exp3_idx1GCTTGAAGAG_idx2TTGGTCATAA


title: exp3_idx1GCTTGAAGAG_idx2TTGAGTATCA


title: exp3_idx1GCTTGAAGAG_idx2TTAGATTCCG


title: exp3_idx1GCTTGAAGAG_idx2TGGACTTGAC


title: exp3_idx1GCTTGAAGAG_idx2TGATAGAACG


title: exp3_idx1GCTTGAAGAG_idx2TCTATAAGGA


title: exp3_idx1GCTTGAAGAG_idx2TCGTAGGCTT


title: exp3_idx1GCTTGAAGAG_idx2TCCGGTAATC


title: exp3_idx1GCTTGAAGAG_idx2TCATCTAATC


title: exp3_idx1GCTTGAAGAG_idx2TGATTCCTCA


title: exp3_idx1GCTTGAAGAG_idx2TATAACTTCC


title: exp3_idx1GCTTGAAGAG_idx2GTCGCTCAGT


title: exp3_idx1GCTTGAAGAG_idx2GGTAGGTCTC


title: exp3_idx1GCTTGAAGAG_idx2GGCTATGACT


title: exp3_idx1GCTTGAAGAG_idx2GGCTAATTAA


title: exp3_idx1GCTTGAAGAG_idx2GATACCTAAG


title: exp3_idx1GGCTTACTCC_idx2ACGTTCAACC


title: exp3_idx1GGCTTACTCC_idx2AATTGCCTAC


title: exp3_idx1GGCTTACTCC_idx2AACGAGGCTA


title: exp3_idx1GCTTGAAGAG_idx2CGAGTTAGAG


title: exp3_idx1GCTTGAAGAG_idx2CCAGGTCTAC


title: exp3_idx1GCTTGAAGAG_idx2CATTATTACC


title: exp3_idx1GCTTGAAGAG_idx2CGAAGGACGA


title: exp3_idx1GCTTGAAGAG_idx2ATAGGATATG


title: exp3_idx1GCTTGAAGAG_idx2CATGCATCTC


title: exp3_idx1GCTTGAAGAG_idx2ATAAGAGGCG


title: exp3_idx1GCTTGAAGAG_idx2AAGATCCAAC


title: exp3_idx1GCTTGAAGAG_idx2ACCAAGATCT


title: exp3_idx1GCTTGAAGAG_idx2ACTATCCGCA


title: exp3_idx1GCTTGAAGAG_idx2ACGAGGACCT


title: exp3_idx1GCGCGTTCAT_idx2TGATACGAGT


title: exp3_idx1GCGCGTTCAT_idx2TGAGGTAGAA


title: exp3_idx1GCTTGAAGAG_idx2AGTCCGCGGA


title: exp3_idx1GCTTGAAGAG_idx2AGTTGCATCT


title: exp3_idx1GCTTGAAGAG_idx2AGATCCTATA


title: exp3_idx1GCGCGTTCAT_idx2TTGGAGTCGG


title: exp3_idx1GCGCGTTCAT_idx2GCTCTAACGA


title: exp3_idx1GCGCGTTCAT_idx2TCTAGAACTA


title: exp3_idx1GCGCGTTCAT_idx2GATTGCAGAC


title: exp3_idx1GCGCGTTCAT_idx2GCAACTGGCA


title: exp3_idx1GCGCGTTCAT_idx2TCCGTCGCCA


title: exp3_idx1GCGCGTTCAT_idx2TCGATATTGA


title: exp3_idx1GCGCGTTCAT_idx2GATGATCGTA


title: exp3_idx1GCTTGAAGAG_idx2CTAACTCCAA


title: exp3_idx1GCGCGTTCAT_idx2GATCAGTCAT


title: exp3_idx1GCGCGTTCAT_idx2GACCTCTCTG


title: exp3_idx1GCGCGTTCAT_idx2CTGCAATCGC


title: exp3_idx1GCGCGTTCAT_idx2CTCGGTCAAT


title: exp3_idx1GCGCGTTCAT_idx2CTCCGGTTCT


title: exp3_idx1GCGCGTTCAT_idx2CGAGCTGCCA


title: exp3_idx1GCGCGTTCAT_idx2CGATCATTAC


title: exp3_idx1GCGCGTTCAT_idx2CCTATAAGCT


title: exp3_idx1GCGCGTTCAT_idx2CCTAGCGCCT


title: exp3_idx1GCGCGTTCAT_idx2CCGTCGGAGG


title: exp3_idx1GCGCGTTCAT_idx2CAAGCTTGGC


title: exp3_idx1GCGCGTTCAT_idx2AGGATTACCA


title: exp3_idx1GCGCGTTCAT_idx2ACTTCCGAAT


title: exp3_idx1GCGCGTTCAT_idx2ACTGAATTCC


title: exp3_idx1GCGCGTTCAT_idx2AATTGCCTAC


title: exp3_idx1GCGCGTTCAT_idx2ACGTTCAACC


title: exp3_idx1GCGCGTTCAT_idx2AGCGTCAATG


title: exp3_idx1GCGCGTTCAT_idx2ACTCTCTCAA


title: exp3_idx1GCGCGTTCAT_idx2ACCGTTACGA


title: exp3_idx1GCGCGTTCAT_idx2AACCTAGCTT


title: exp3_idx1GCATCGTATG_idx2TTCTACGCCA


title: exp3_idx1GCGCGTTCAT_idx2AACGGACCAA


title: exp3_idx1GCGCGTTCAT_idx2AACTTATAAG


title: exp3_idx1GCATCGTATG_idx2TTAACGTACC


title: exp3_idx1GCATCGTATG_idx2GTTCCGACGA


title: exp3_idx1GCATCGTATG_idx2GCTCTCGCCT


title: exp3_idx1GCATCGTATG_idx2GATTGCAGAC


title: exp3_idx1GCATCGTATG_idx2TCGATATTGA


title: exp3_idx1GCATCGTATG_idx2TCCGTCGCCA


title: exp3_idx1GCATCGTATG_idx2GCAACTGGCA


title: exp3_idx1GCATCGTATG_idx2GACCTCTCTG


title: exp3_idx1GCATCGTATG_idx2GACCGTAGCA


title: exp3_idx1GCATCGTATG_idx2CTGCAATCGC


title: exp3_idx1GCATCGTATG_idx2CTCGATGGAG


title: exp3_idx1GCATCGTATG_idx2CGCCGCCTCC


title: exp3_idx1GCATCGTATG_idx2AGCGTCAATG


title: exp3_idx1GCATCGTATG_idx2CGAGCTGCCA


title: exp3_idx1GCATCGTATG_idx2AACTACCGAC


title: exp3_idx1GCATCGTATG_idx2ACTGAATTCC


title: exp3_idx1GCATCGTATG_idx2ACTTCCGAAT


title: exp3_idx1GATTCTTGAA_idx2TGATAGAACG


title: exp3_idx1GATTCTTGAA_idx2TCTATAAGGA


title: exp3_idx1GATTCTTGAA_idx2TCCGGTAATC


title: exp3_idx1GATTCTTGAA_idx2TCATCTCGAT


title: exp3_idx1GATTCTTGAA_idx2GTCGCTCAGT


title: exp3_idx1GATTCTTGAA_idx2TATAACTTCC


title: exp3_idx1GATTCTTGAA_idx2GGCTATGACT


title: exp3_idx1GATTCTTGAA_idx2GGCTAATTAA


title: exp3_idx1GATTCTTGAA_idx2GGACTCATTG


title: exp3_idx1GCATCGTATG_idx2AACCTAGCTT


title: exp3_idx1GATTCTTGAA_idx2GTCATTGCGC


title: exp3_idx1GATTCTTGAA_idx2CGACTACCAA


title: exp3_idx1GATTCTTGAA_idx2GATACCTAAG


title: exp3_idx1GATTCTTGAA_idx2CTAACTCCAA


title: exp3_idx1GATTCTTGAA_idx2CCAGGTCTAC


title: exp3_idx1GATTCTTGAA_idx2ATAGGATATG


title: exp3_idx1GATTCTTGAA_idx2CGTCCGTCCT


title: exp3_idx1GATTCTTGAA_idx2ATAAGAGGCG


title: exp3_idx1GATTCTTGAA_idx2AGTTGCATCT


title: exp3_idx1GCATCGTATG_idx2CAAGCTTGGC


title: exp3_idx1GATTCTTGAA_idx2CAAGTACTGG


title: exp3_idx1GATTCTTGAA_idx2AGTCCGCGGA


title: exp3_idx1GATTCTTGAA_idx2AGATCCTATA


title: exp3_idx1GATTCTTGAA_idx2ACTATCTTGA


title: exp3_idx1GATTCTTGAA_idx2TGGCCGCAAT


title: exp3_idx1GAGCGCGATG_idx2TTGGAGTCGG


title: exp3_idx1GAGCGCGATG_idx2TTCTACGCCA


title: exp3_idx1GAGCGCGATG_idx2TTAACGTACC


title: exp3_idx1GAGCGCGATG_idx2TGCCAGATGG


title: exp3_idx1GAGCGCGATG_idx2GTTCCGACGA


title: exp3_idx1GAGCGCGATG_idx2CTCGTCTAGG


title: exp3_idx1GAGCGCGATG_idx2GATCAGTCAT


title: exp3_idx1GAGCGCGATG_idx2CTGCTTCGAC


title: exp3_idx1GAGCGCGATG_idx2CGATCATTAC


title: exp3_idx1GAGCGCGATG_idx2CTCGATGGAG


title: exp3_idx1GAGCGCGATG_idx2GACCTCCGCC


title: exp3_idx1GAGCGCGATG_idx2CGCCGCCTCC


title: exp3_idx1GAGCGCGATG_idx2GGAACGATGG


title: exp3_idx1GATTCTTGAA_idx2CGAAGGACGA


title: exp3_idx1GAGCGCGATG_idx2CCGTCGGAGG


title: exp3_idx1GAGCGCGATG_idx2GCTCTCGCCT


title: exp3_idx1GAGCGCGATG_idx2AGGATTACCA


title: exp3_idx1GAGCGCGATG_idx2CCTATAAGCT


title: exp3_idx1GAGCGCGATG_idx2AAGCCGGCTG


title: exp3_idx1GAGCGCGATG_idx2AATTGCCTAC


title: exp3_idx1CTCAATTAGT_idx2TGGCCGCAAT


title: exp3_idx1GAGCGCGATG_idx2ACGCAACTCC


title: exp3_idx1CTCAATTAGT_idx2TTAGATTCCG


title: exp3_idx1GAGCGCGATG_idx2AACGAGGCTA


title: exp3_idx1GAGCGCGATG_idx2ACCGTTACGA


title: exp3_idx1CTCAATTAGT_idx2TCTATAAGGA


title: exp3_idx1CTCAATTAGT_idx2TCGTAGGCTT


title: exp3_idx1CTCAATTAGT_idx2TGATTCCTCA


title: exp3_idx1CTCAATTAGT_idx2TCATCTCGAT


title: exp3_idx1CTCAATTAGT_idx2TATAACTTCC


title: exp3_idx1CTCAATTAGT_idx2TCCGGTAATC


title: exp3_idx1CTCAATTAGT_idx2GTCATTGCGC


title: exp3_idx1CTCAATTAGT_idx2GGCTAATTAA


title: exp3_idx1CTCAATTAGT_idx2GGCTATGACT


title: exp3_idx1CTCAATTAGT_idx2GGACTCATTG


title: exp3_idx1CTCAATTAGT_idx2CGACTACCAA


title: exp3_idx1CTCAATTAGT_idx2CGTCCGTCCT


title: exp3_idx1CTCAATTAGT_idx2CCAGGTCTAC


title: exp3_idx1CTCAATTAGT_idx2CGAAGGACGA


title: exp3_idx1CTCAATTAGT_idx2ATAGGATATG


title: exp3_idx1CTCAATTAGT_idx2CAAGTACTGG


title: exp3_idx1CTCAATTAGT_idx2GATACCTAAG


title: exp3_idx1CTCAATTAGT_idx2ACCAAGATCT


title: exp3_idx1CTCAATTAGT_idx2AGATCCTATA


title: exp3_idx1CTCAATTAGT_idx2ACTATCTTGA


title: exp3_idx1CTCAATTAGT_idx2AGTCCGCGGA


title: exp3_idx1CTCAATTAGT_idx2ATAAGAGGCG


title: exp3_idx1CCTCAGCTCC_idx2TGGCCGCAAT


title: exp3_idx1CCTCAGCTCC_idx2TGATAGAACG


title: exp3_idx1CCTCAGCTCC_idx2GTCATTGCGC


title: exp3_idx1CCTCAGCTCC_idx2GTTGACGGCC


title: exp3_idx1CCTCAGCTCC_idx2TCATCTCGAT


title: exp3_idx1CCTCAGCTCC_idx2GTCGCTCAGT


title: exp3_idx1CCTCAGCTCC_idx2TCATCTAATC


title: exp3_idx1CCTCAGCTCC_idx2GGACTCATTG


title: exp3_idx1CCTCAGCTCC_idx2GACTAGTCTA


title: exp3_idx1CCTCAGCTCC_idx2GAACTGCATC


title: exp3_idx1CCTCAGCTCC_idx2GGTCCAGGAG


title: exp3_idx1CCTCAGCTCC_idx2CGTCCGTCCT


title: exp3_idx1CCTCAGCTCC_idx2CTAACTCCAA


title: exp3_idx1CCTCAGCTCC_idx2CATTATTACC


title: exp3_idx1CCTCAGCTCC_idx2CCAAGCTGAA


title: exp3_idx1CCTCAGCTCC_idx2CGGCGAGACC


title: exp3_idx1CCTCAGCTCC_idx2CATGCATCTC


title: exp3_idx1CCTCAGCTCC_idx2AGGTCAATTA


title: exp3_idx1CCTCAGCTCC_idx2CAAGATTAAG


title: exp3_idx1CCTCAGCTCC_idx2CAAGTACTGG


title: exp3_idx1CCTCAGCTCC_idx2ACTATCTTGA


title: exp3_idx1CCTCAGCTCC_idx2ACGAGGACCT


title: exp3_idx1CCTCAGCTCC_idx2AGTTGCATCT


title: exp3_idx1ATTATGCAAG_idx2TTGGTCATAA


title: exp3_idx1ATTATGCAAG_idx2TTGAGTATCA


title: exp3_idx1ATTATGCAAG_idx2TGGCGTAGGT


title: exp3_idx1ATTATGCAAG_idx2TGGACTTGAC


title: exp3_idx1ATTATGCAAG_idx2GTTGACGGCC


title: exp3_idx1ATTATGCAAG_idx2TGATAGAACG


title: exp3_idx1CCTCAGCTCC_idx2CGACTACCAA


title: exp3_idx1ATTATGCAAG_idx2GGTCCAGGAG


title: exp3_idx1ATTATGCAAG_idx2GTCGCTCAGT


title: exp3_idx1ATTATGCAAG_idx2GGTAGGTCTC


title: exp3_idx1ATTATGCAAG_idx2CGGCGAGACC


title: exp3_idx1ATTATGCAAG_idx2GAACTGCATC


title: exp3_idx1ATTATGCAAG_idx2CGAGTTAGAG


title: exp3_idx1ATTATGCAAG_idx2CTAACTCCAA


title: exp3_idx1ATTATGCAAG_idx2GACTAGTCTA


title: exp3_idx1ATTATGCAAG_idx2CCAAGCTGAA


title: exp3_idx1ATTATGCAAG_idx2AGTTGCATCT


title: exp3_idx1ATTATGCAAG_idx2AGGTCAATTA


title: exp3_idx1ATTATGCAAG_idx2CATTATTACC


title: exp3_idx1ATTATGCAAG_idx2CAAGATTAAG


title: exp3_idx1ATTATGCAAG_idx2ACGAGGACCT


title: exp3_idx1ATTATGCAAG_idx2ACTATCCGCA


title: exp3_idx1ATGGCGCCTG_idx2GTTGACGGCC


title: exp3_idx1ATGGCGCCTG_idx2TGGCCGCAAT


title: exp3_idx1ATTATGCAAG_idx2AAGATCCAAC


title: exp3_idx1ATTATGCAAG_idx2TCATCTAATC


title: exp3_idx1ATGGCGCCTG_idx2TCATCTCGAT


title: exp3_idx1ATGGCGCCTG_idx2GTCATTGCGC


title: exp3_idx1ATGGCGCCTG_idx2GGACTCATTG


title: exp3_idx1ATGGCGCCTG_idx2GACTAGTCTA


title: exp3_idx1ATGGCGCCTG_idx2ACTATCTTGA


title: exp3_idx1ATGGCGCCTG_idx2CAAGATTAAG


title: exp3_idx1ATGGCGCCTG_idx2CAAGTACTGG


title: exp3_idx1ATGGCGCCTG_idx2CCAAGCTGAA


title: exp3_idx1ATGGCGCCTG_idx2CGTCCGTCCT


title: exp3_idx1ATAAGGACTC_idx2TGGCGTAGGT


title: exp3_idx1ATGGCGCCTG_idx2CGGCGAGACC


title: exp3_idx1ATAAGGACTC_idx2TTGGTCATAA


title: exp3_idx1ATAAGGACTC_idx2TTGAGTATCA


title: exp3_idx1ATAAGGACTC_idx2TGGACTTGAC


title: exp3_idx1ATAAGGACTC_idx2GTTGACGGCC


title: exp3_idx1ATGGCGCCTG_idx2AGGTCAATTA


title: exp3_idx1ATGGCGCCTG_idx2GAACTGCATC


title: exp3_idx1ATAAGGACTC_idx2GGTCCAGGAG


title: exp3_idx1ATTATGCAAG_idx2CATGCATCTC


title: exp3_idx1ATAAGGACTC_idx2GACTAGTCTA


title: exp3_idx1ATAAGGACTC_idx2GAACTGCATC


title: exp3_idx1ATAAGGACTC_idx2CGGCGAGACC


title: exp3_idx1ATAAGGACTC_idx2CGAGTTAGAG


title: exp3_idx1ATGGCGCCTG_idx2GGTCCAGGAG


title: exp3_idx1ATAAGGACTC_idx2CAAGATTAAG


title: exp3_idx1ATAAGGACTC_idx2ATAGGATATG


title: exp3_idx1ATAAGGACTC_idx2ATAAGAGGCG


title: exp3_idx1ATAAGGACTC_idx2CCAAGCTGAA


title: exp3_idx1ATAAGGACTC_idx2AGTCCGCGGA


title: exp3_idx1ATAAGGACTC_idx2AGGTCAATTA


title: exp3_idx1ATAAGGACTC_idx2ACTATCCGCA


title: exp3_idx1ATAAGGACTC_idx2AAGATCCAAC


title: exp3_idx1AGTCCGCTGC_idx2TGATTCCTCA


title: exp3_idx1AGTCCGCTGC_idx2TTAGATTCCG


title: exp3_idx1AGTCCGCTGC_idx2TATAACTTCC


title: exp3_idx1AGTCCGCTGC_idx2GGTCCAGGAG


title: exp3_idx1ATAAGGACTC_idx2GGTAGGTCTC


title: exp3_idx1AGTCCGCTGC_idx2TCGTAGGCTT


title: exp3_idx1AGTCCGCTGC_idx2GACTAGTCTA


title: exp3_idx1AGTCCGCTGC_idx2TGGCCGCAAT


title: exp3_idx1ATAAGGACTC_idx2GGCTATGACT


title: exp3_idx1AGTCCGCTGC_idx2TCTATAAGGA


title: exp3_idx1AGTCCGCTGC_idx2CGTCCGTCCT


title: exp3_idx1AGTCCGCTGC_idx2GTCATTGCGC


title: exp3_idx1AGTCCGCTGC_idx2GTTGACGGCC


title: exp3_idx1AGTCCGCTGC_idx2TCCGGTAATC


title: exp3_idx1AGTCCGCTGC_idx2CGGCGAGACC


title: exp3_idx1AGTCCGCTGC_idx2GGACTCATTG


title: exp3_idx1AGTCCGCTGC_idx2CGACTACCAA


title: exp3_idx1AGTCCGCTGC_idx2CAAGTACTGG


title: exp3_idx1AGTCCGCTGC_idx2CAAGATTAAG


title: exp3_idx1AGTCCGCTGC_idx2AGATCCTATA


title: exp3_idx1AGTCCGCTGC_idx2ACTATCTTGA


title: exp3_idx1AGTCCGCTGC_idx2ACCAAGATCT


title: exp3_idx1AGGTCAGCTT_idx2TGGCGTAGGT


title: exp3_idx1AGGTCAGCTT_idx2TCATCTCGAT


title: exp3_idx1AGGTCAGCTT_idx2TGGACTTGAC


title: exp3_idx1AGTCCGCTGC_idx2TCATCTCGAT


title: exp3_idx1AGGTCAGCTT_idx2GTCATTGCGC


title: exp3_idx1AGGTCAGCTT_idx2GGCTAATTAA


title: exp3_idx1AGGTCAGCTT_idx2GGCTATGACT


title: exp3_idx1AGGTCAGCTT_idx2CGTCCGTCCT


title: exp3_idx1AGGTCAGCTT_idx2GATACCTAAG


title: exp3_idx1AGGTCAGCTT_idx2CAAGTACTGG


title: exp3_idx1AGGTCAGCTT_idx2ATAAGAGGCG


title: exp3_idx1AGGTCAGCTT_idx2CGACTACCAA


title: exp3_idx1AGGTCAGCTT_idx2CGAAGGACGA


title: exp3_idx1AGGTCAGCTT_idx2CCAGGTCTAC


title: exp3_idx1AGTCCGCTGC_idx2GAACTGCATC


title: exp3_idx1AGACCATATC_idx2TGCCAGATGG


title: exp3_idx1AGTCCGCTGC_idx2CCAAGCTGAA


title: exp3_idx1AGGTCAGCTT_idx2ACTATCCGCA


title: exp3_idx1AGACCATATC_idx2TTGGAGTCGG


title: exp3_idx1AGGTCAGCTT_idx2ACTATCTTGA


title: exp3_idx1AGTCCGCTGC_idx2AGGTCAATTA


title: exp3_idx1AGGTCAGCTT_idx2AGTCCGCGGA


title: exp3_idx1AGGTCAGCTT_idx2ATAGGATATG


title: exp3_idx1AGGTCAGCTT_idx2AAGATCCAAC


title: exp3_idx1AGACCATATC_idx2TCGATATTGA


title: exp3_idx1AGGTCAGCTT_idx2TGGCCGCAAT


title: exp3_idx1AGACCATATC_idx2GGAACGATGG


title: exp3_idx1AGACCATATC_idx2GCAACTGGCA


title: exp3_idx1AGACCATATC_idx2GACCTCCGCC


title: exp3_idx1AGGTCAGCTT_idx2GGACTCATTG


title: exp3_idx1AGACCATATC_idx2CTCGTCTAGG


title: exp3_idx1AGACCATATC_idx2CTGCTTCGAC