title: E13_MS118_114 (SingleCell232)

description: Cynomolgus Embryo at E13


title: Jun_DZ7

status: Public on Jan 29 2020

type: SRA

city: Wuhan

first: Leike

last: Zhang

address: Xiaohongshan road

country: China

institute: The State Key Laboratory of Virology  Wuhan Institute of Virology, CAS

library_source: transcriptomic

data_processing:
base calling: Casava v1.8.2 was used for base calling
data filtering: NGSQCtoolkit v2.3.3 was used for data filtering
read alignment: HISAT v0.1.5 was used for read alignment
abundance measurement: StringTie v1.3.3 was used for abundance measurement
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample.

molecule: total RNA

organism: Homo sapiens

source_name: whole blood cells

extract_protocol:
Whole blood cells were collected and total RNA was extracted with Trizol (Tiangen, Beijing) and assessed with Agilent 2100 BioAnalyzer (Agilent Technologies, Santa Clara, CA, USA) and Qubit Fluorometer (Invitrogen).
The NEB Next Ultra RNA Library Prep Kit for Illumina (NEB) was used to construct the libraries for sequencing.

tag: patient diagnosis

value: healthy

tag: tissue

value: whole blood cells

tag: clincal status group

value: Healthy


title: E13_MS118_111 (SingleCell230)

city: Kyoto

first: Yukihiro

last: Yabuta

state: Kyoto

address: Yoshida-Konoe-cho, Sakyo-ku

department: Anatomy and Cell Biology

country: Japan

institute: Kyoto University, Graduate school of medicine

description: Cynomolgus Embryo at E13

data_processing:
library strategy: SC3-seq
Samples were sequenced on NextSeq and SOLiD sequencers with the read length are 76 and 50 bases.
All the reads were surveyed and the adaptor or the poly-A sequences were trimmed by cutadapt-1.3 with options "-e 0.1 -q 20 -n 2 -O 1 -m 30 -a CTCGAGGGCGCGCCGGATCC -g CTCGAGGGCGCGCCGGATCC -a AAAAAAAAAAAAAAAAAAAA -a TTTTTTTTTTTTTTTTTTTT". The trimmed reads with less than 30 bp were discarded.
Untrimmed and trimmed reads of 30 bp or longer were mapped onto the Cynomolgus monkey genome Macfac5.0 and the ERCC spike-in RNA sequences with tophat-1.4.1/bowtie1.0.1 with the “—no-coverage-search” option.
Mapped reads on the genome and the ERCC were separated, and the reads on the genome were converted into the expression levels by cufflinks-2.2.0 using the “—compatible-hits-norm”,  “—max-mle-iterations 50000", “—no-length-correction” and “—library-type fr-secondstrand” options and macfas5.0 reference gene annotations with extended TTSs. For the reference gene annotations used in cufflinks, we extended the TTSs of the reference genes up to 10 kb downstream to correctly estimate the expression levels of genes whose transcripts are longer than the reference toward the 3 prime.
Genome_build: macfas5.0
Supplementary_files_format_and_content: tab-delimited text file includes RPM values for each Sample

organism: Macaca fascicularis

source_name: Cynomolgus Embryo at E13

growth_protocol:
For cultivation of CMK6 and CMK9 cyESCs, they were cultured with conventional hESC medium [DMEM/F12 supplemented with 20% (vol/vol) of KSR, 1 mM of sodium pyruvate, 2 mM of GlutaMax, 0.1 mM of non-essential amino acids, 0.1 mM of 2-mercaptoethanol, 1000 U/ml of ESGRO mouse LIF, and 4 ng/ml of recombinant human bFGF] on mouse embryonic feeders (MEFs).
For cultivation in 656BTAG42 cells under undifferentiated state, it was cultured in AITS medium containing 20ng/mL bFGF and 2.5nM IWR1

extract_protocol:
For single cell isolation from cy pre-implantation embryos, a whole embryo was incubated with 0.25% trypsin/PBS  for around 10 min at 37℃, then dissociated into single cells by repeated pipetting, and dispersed in 0.1 mg/ml of PVA/PBS  for preparation of single-cell cDNAs.
For single cell isolation from cy post-implantation embryos, the implantation site was dissected out from the uterus and the embryonic fragment containing the epiblast (EPI), amnion, hypoblast, and yolk sac endoderm was isolated manually. The fragment was incubated with 0.25% trypsin/PBS for around 10 min at 37℃, then dissociated into single cells by repeated pipetting, and dispersed in 0.1 mg/ml of PVA/PBS.
For single cell isolation from cyESCs, cells were first detached as clumps with CTK solution, incubated in 0.25% trypsin/PBS (Sigma-Aldrich) for around 10 min at 37℃, and dispersed into single cells in 1% (vol/vol) KSR/PBS containing 10 M of the ROCK inhibitor Y-27632. Cells under feeder-free condition were directly incubated in TrypLE Select for around 5 min at 37℃, and dispersed into single cells in 1% (vol/vol) KSR/PBS containing 10 uM of the ROCK inhibitor Y-27632.
For single cell isolation from cyPGCLCs, the cells dissociated with TryPLE select were collected by cell sorting.
For SC3-seq analysis, cDNA synthesis / amplification from single cells and library construction from the cDNAs were performed as described previously [Nakamura et al. 2015, NAR, 43, e60].

treatment_protocol: For cyPGCLCs, undifferentiated ESCs were dissociated and replated to low-adherent V-bottom plates to form aggregates with BMP4 (200 ng/ml), SCF (100 ng/ml), EGF (50 ng/ml), LIF(1000U/ml), and Y27632 (10µM) in GMEM containing 15% KSR or Advanced RPMI1640 containing B27, until the harvest day.

tag: cell line

value: not applicable

tag: cell type

value: embryo

tag: developmental stage


title: E06_MS003_018 (SingleCell041)

description: Cynomolgus Embryo at E06

source_name: Cynomolgus Embryo at E06


title: E07_MS003_050 (SingleCell066)

description: Cynomolgus Embryo at E07

source_name: Cynomolgus Embryo at E07


title: E13_MS118_115 (SingleCell233)

description: Cynomolgus Embryo at E13


title: E13_MS118_146 (SingleCell240)

description: Cynomolgus Embryo at E13


title: E13_MS118_113 (SingleCell231)

description: Cynomolgus Embryo at E13


title: E13_MS118_104 (SingleCell225)

description: Cynomolgus Embryo at E13


title: E13_MS118_108 (SingleCell227)

description: Cynomolgus Embryo at E13


title: E13_MS118_109 (SingleCell228)

description: Cynomolgus Embryo at E13


title: Jun_DZ8


title: E13_MS118_107 (SingleCell226)

description: Cynomolgus Embryo at E13


title: E13_MS127_060 (SingleCell243)

description: Cynomolgus Embryo at E13


title: E13_MS118_110 (SingleCell229)

description: Cynomolgus Embryo at E13


title: E13_MS118_103 (SingleCell224)

description: Cynomolgus Embryo at E13


title: E13_MS118_098 (SingleCell220)

description: Cynomolgus Embryo at E13


title: E13_MS118_092 (SingleCell218)

description: Cynomolgus Embryo at E13


title: E13_MS118_117 (SingleCell234)

description: Cynomolgus Embryo at E13


title: E13_MS118_101 (SingleCell222)

description: Cynomolgus Embryo at E13


title: E13_MS118_127 (SingleCell238)

description: Cynomolgus Embryo at E13


title: E13_MS118_100 (SingleCell221)

description: Cynomolgus Embryo at E13


title: E13_MS117_122 (SingleCell216)

description: Cynomolgus Embryo at E13


title: E13_MS117_120 (SingleCell215)

description: Cynomolgus Embryo at E13


title: E13_MS101_039 (SingleCell212)

description: Cynomolgus Embryo at E13


title: E13_MS101_066 (SingleCell213)

description: Cynomolgus Embryo at E13


title: E13_MS101_038 (SingleCell211)

description: Cynomolgus Embryo at E13


title: E13_MS101_025 (SingleCell208)

description: Cynomolgus Embryo at E13


title: E13_MS118_096 (SingleCell219)

description: Cynomolgus Embryo at E13


title: E13_MS117_094 (SingleCell214)

description: Cynomolgus Embryo at E13


title: E13_MS101_019 (SingleCell207)

description: Cynomolgus Embryo at E13


title: E13_MS101_027 (SingleCell209)

description: Cynomolgus Embryo at E13


title: E13_MS101_037 (SingleCell210)

description: Cynomolgus Embryo at E13


title: E13_MS101_005 (SingleCell203)

description: Cynomolgus Embryo at E13


title: E13_MS101_003 (SingleCell202)

description: Cynomolgus Embryo at E13


title: E09_MS099_033 (SingleCell188)

description: Cynomolgus Embryo at E09

source_name: Cynomolgus Embryo at E09


title: E13_MS101_006 (SingleCell204)

description: Cynomolgus Embryo at E13


title: E13_MS101_015 (SingleCell206)

description: Cynomolgus Embryo at E13


title: E13_MS101_001 (SingleCell200)

description: Cynomolgus Embryo at E13


title: Jun_BJ3

value: SFTS

value: AcuteDeceased


title: E13_MS118_102 (SingleCell223)

description: Cynomolgus Embryo at E13


title: E13_MS117_123 (SingleCell217)

description: Cynomolgus Embryo at E13


title: E13_MS101_002 (SingleCell201)

description: Cynomolgus Embryo at E13


title: E08_MS133_039 (SingleCell173)

description: Cynomolgus Embryo at E08

source_name: Cynomolgus Embryo at E08


title: biopsy_Ulcerative _73

type: genomic

city: Cork

first: Marcus

last: Claesson

address: College Road

country: Ireland

institute: University College Cork

description: Patient 73 Ulcerative Colitis

hyb_protocol: The DNA samples are denatured at 95°C for 20 min, then placed in a humidified container for a minimum of 16 h at 48°C allowing SNP loci to hybridize to the 50mer capture probes. Following hybridization, the BeadChip/Te-Flow chamber assembly was placed on the temperature-controlled Tecan Flowthrough Rack, and all subsequent washing, extension, and staining were performed by addition of reagents to the Te-Flow chamber.

scan_protocol: After staining was complete, the slides were washed with low salt wash buffer (PB1), immediately coated with XStain BeadChip solution 4 (XC4), and then imaged on the Illumina iScan platform. The Illumina iScan scanner excites the fluorophors generated during signal amplification/staining of the single-base (two color) extension products on the BeadChips.

data_processing: The image intensities are extracted using Illumina GenomeStudio software.

label: Illumina Infinium reagents Long XStain 1, Long Xstain 2 and Extension Mix Long

molecule: genomic DNA

source_name: Colonic Biopsy

label_protocol: Primers were extended with a polymerase and labeled nucleotide mix (Long XStain 1, Long Xstain 2, Extension Mix Long), and stained with repeated application of Signal Mix Long  (staining reagent) and Anti-Stain Two-Color Master Mix  (anti-staining reagent).

extract_protocol: Genomic DNA was extracted from colonic biopsies using AllPrep DNA/RNA mini kit (Qiagen) and following manufacturer's instructions. Sample homogenization was done by two cicles of 15 min at 6500 rpm in a MagnaLyser.

tag: gender

value: Male

tag: disease state

value: ulcerative


title: biopsy_Ulcerative _96

description: Patient 96 Ulcerative Colitis


title: biopsy_Ulcerative _97

description: Patient 97 Ulcerative Colitis


title: biopsy_Ulcerative _101

description: Patient 10 Ulcerative Colitis


title: biopsy_Ulcerative _100

description: Patient 10 Ulcerative Colitis

value: Female


title: biopsy_Healthy_52

description: Patient 52 Healthy


title: E13_MS101_007 (SingleCell205)

description: Cynomolgus Embryo at E13


title: biopsy_Ulcerative _92

description: Patient 92 Ulcerative Colitis


title: biopsy_Ulcerative _93

description: Patient 93 Ulcerative Colitis


title: biopsy_Ulcerative _91

description: Patient 91 Ulcerative Colitis


title: biopsy_Ulcerative _99

description: Patient 99 Ulcerative Colitis


title: biopsy_Ulcerative _89

description: Patient 89 Ulcerative Colitis


title: biopsy_Ulcerative _88

description: Patient 88 Ulcerative Colitis


title: biopsy_Ulcerative _87

description: Patient 87 Ulcerative Colitis


title: biopsy_Ulcerative _85

description: Patient 85 Ulcerative Colitis


title: biopsy_Ulcerative _84

description: Patient 84 Ulcerative Colitis


title: biopsy_Ulcerative _86

description: Patient 86 Ulcerative Colitis


title: biopsy_Ulcerative _90

description: Patient 90 Ulcerative Colitis


title: biopsy_Ulcerative _78

description: Patient 78 Ulcerative Colitis


title: biopsy_Ulcerative _77

description: Patient 77 Ulcerative Colitis


title: biopsy_Ulcerative _79

description: Patient 79 Ulcerative Colitis


title: biopsy_Ulcerative _82

description: Patient 82 Ulcerative Colitis


title: biopsy_Ulcerative _75

description: Patient 75 Ulcerative Colitis


title: biopsy_Ulcerative _94

description: Patient 94 Ulcerative Colitis


title: biopsy_Ulcerative _80

description: Patient 80 Ulcerative Colitis


title: Jun_BJ10


title: biopsy_Ulcerative _95

description: Patient 95 Ulcerative Colitis


title: biopsy_Ulcerative _69

description: Patient 69 Ulcerative Colitis


title: biopsy_Ulcerative _71

description: Patient 71 Ulcerative Colitis


title: biopsy_Ulcerative _65

description: Patient 65 Ulcerative Colitis


title: biopsy_Ulcerative _68

description: Patient 68 Ulcerative Colitis


title: E08_MS126_062 (SingleCell125)

description: Cynomolgus Embryo at E08


title: biopsy_Ulcerative _66

description: Patient 66 Ulcerative Colitis


title: biopsy_Ulcerative _72

description: Patient 72 Ulcerative Colitis


title: E08_MS126_058 (SingleCell122)

description: Cynomolgus Embryo at E08


title: biopsy_Ulcerative _61

description: Patient 61 Ulcerative Colitis


title: biopsy_Ulcerative _64

description: Patient 64 Ulcerative Colitis


title: E08_MS126_052 (SingleCell121)

description: Cynomolgus Embryo at E08


title: biopsy_Ulcerative _59

description: Patient 59 Ulcerative Colitis


title: biopsy_Ulcerative _63

description: Patient 63 Ulcerative Colitis


title: biopsy_Ulcerative _60

description: Patient 60 Ulcerative Colitis


title: E08_MS132_203 (SingleCell135)

description: Cynomolgus Embryo at E08


title: E08_MS126_049 (SingleCell118)

description: Cynomolgus Embryo at E08


title: biopsy_Ulcerative _67

description: Patient 67 Ulcerative Colitis


title: biopsy_Ulcerative _58

description: Patient 58 Ulcerative Colitis


title: E08_MS126_048 (SingleCell117)

description: Cynomolgus Embryo at E08


title: biopsy_Ulcerative _51

description: Patient 51 Ulcerative Colitis


title: E08_MS126_045 (SingleCell115)

description: Cynomolgus Embryo at E08


title: E08_MS126_046 (SingleCell116)

description: Cynomolgus Embryo at E08


title: biopsy_Ulcerative _50

description: Patient 50 Ulcerative Colitis


title: biopsy_Ulcerative _49

description: Patient 49 Ulcerative Colitis


title: biopsy_Ulcerative _48

description: Patient 48 Ulcerative Colitis


title: biopsy_Ulcerative _47

description: Patient 47 Ulcerative Colitis


title: biopsy_Ulcerative _40

description: Patient 40 Ulcerative Colitis


title: biopsy_Ulcerative _44

description: Patient 44 Ulcerative Colitis


title: biopsy_Ulcerative _74

description: Patient 74 Ulcerative Colitis


title: biopsy_Ulcerative _43

description: Patient 43 Ulcerative Colitis


title: biopsy_Ulcerative _39

description: Patient 39 Ulcerative Colitis


title: E08_MS126_051 (SingleCell120)

description: Cynomolgus Embryo at E08


title: biopsy_Ulcerative _38

description: Patient 38 Ulcerative Colitis


title: biopsy_Ulcerative _35

description: Patient 35 Ulcerative Colitis


title: biopsy_Ulcerative _52

description: Patient 52 Ulcerative Colitis


title: biopsy_Ulcerative _37

description: Patient 37 Ulcerative Colitis


title: biopsy_Ulcerative _32

description: Patient 32 Ulcerative Colitis


title: biopsy_Ulcerative _29

description: Patient 29 Ulcerative Colitis


title: biopsy_Ulcerative _33

description: Patient 33 Ulcerative Colitis


title: biopsy_Ulcerative _30

description: Patient 30 Ulcerative Colitis


title: biopsy_Ulcerative _26

description: Patient 26 Ulcerative Colitis


title: biopsy_Ulcerative _45

description: Patient 45 Ulcerative Colitis


title: biopsy_Ulcerative _27

description: Patient 27 Ulcerative Colitis


title: biopsy_Ulcerative _25

description: Patient 25 Ulcerative Colitis


title: biopsy_Ulcerative _24

description: Patient 24 Ulcerative Colitis


title: biopsy_Ulcerative _22

description: Patient 22 Ulcerative Colitis


title: biopsy_Ulcerative _36

description: Patient 36 Ulcerative Colitis


title: biopsy_Ulcerative _21

description: Patient 21 Ulcerative Colitis


title: biopsy_Ulcerative _18

description: Patient 18 Ulcerative Colitis


title: biopsy_Ulcerative _20

description: Patient 20 Ulcerative Colitis


title: biopsy_Ulcerative _17

description: Patient 17 Ulcerative Colitis


title: biopsy_Ulcerative _31

description: Patient 31 Ulcerative Colitis


title: biopsy_Ulcerative _16

description: Patient 16 Ulcerative Colitis


title: biopsy_Ulcerative _14

description: Patient 14 Ulcerative Colitis


title: biopsy_Ulcerative _11

description: Patient 11 Ulcerative Colitis


title: biopsy_Ulcerative _13

description: Patient 13 Ulcerative Colitis


title: biopsy_Ulcerative _28

description: Patient 28 Ulcerative Colitis


title: biopsy_Ulcerative _12

description: Patient 12 Ulcerative Colitis


title: biopsy_Ulcerative _07

description: Patient 08 Ulcerative Colitis


title: E07_MS099_078 (SingleCell082)

description: Cynomolgus Embryo at E07


title: biopsy_Ulcerative _06

description: Patient 06 Ulcerative Colitis


title: biopsy_Ulcerative _19

description: Patient 19 Ulcerative Colitis


title: UMSCC25_2w_rep3

city: Cleveland

first: Jihye

last: Kim

state: Ohio

address: 9500 Euclid Ave.

department: Quantitative Health Sciences

country: USA

institute: Cleveland Clinic

library_source: genomic

data_processing:
Library strategy: shRNA-seq
alignment: Bowtie v1.1.1 that allows no mismatches
normalization : quartile normalization
comparison : fisher's exact test assuming negative binomial (edgeR)
gene collapsing : weighted z-transformation
Genome_build: hg19 (Ucsc) - TRC Kinome siRNA reference library
Supplementary_files_format_and_content: text file with read counts

source_name: Head and Neck Squamous Cell Carcinoma cell line

growth_protocol: Cell lines were routinely cultured in Dulbecco’s Modified Eagle’s Medium (DMEM) (Invitrogen, Carlsbad, CA) supplemented with 10% fetal bovine serum (FBS) with 1% penicillinstreptomycin (Sigma-Aldrich, St. Louis, MO) at 37°C in a humidified 5% CO2 incubator.

extract_protocol:
Total genomic DNA was extracted with the Quick-gDNA MiniPrep Kit (Zymo Research Corporation) according to manufacturer's instructions.
Synthetic Lethal Screen : 4x10^6 cells from each of the cell lines (UMSCC8, UMSCC25, HN12, Cal27, JHU011) were plated into duplicate 15cm plates (3x10^6 cells/plate) and transduced 24 hours later with the kinome shRNA library containing viral supernatant and 8 μg/ml polybrene (Sigma-Aldrich). After 72 hours, transfected cells were selected with puromycin (1 μg/ml) for 5 days. The lentiviral preparation for the SBI genome-wide screen was reported in our previous publication
Essential Kinome Screen : Target cell lines (UMSCC8, UMSCC25, HN6, HN12, Cal27, JHU011) were plated at 5x10^6 cells per 15 cm plate, 2 plates per cell line, in 20 mL growth medium. The following day, cells were pretreated with 1 µg/mL polybrene for 30 minutes. The media containing the packaged lentiviral kinome shRNA library was added to each plate of target cells at a MOI of ~0.2, incubated for 16 hours and then removed and replaced with fresh growth medium (lacking puromycin). Forty-eight hours post-infection, each cell line was trypsinized and plated at a density of at least 2x10^6 cells per 15 cm plate in quadruplicate. Additionally, at the same 6 time point, four replicates of 4x10^6 cells each from each cell line were pelleted.

treatment_protocol: Cells were treated with media containing lentiviral kinome shRNA library. Genomic DNA was isolated after 14 days of culture post lentiviral transduction

tag: treatment

value: lentiviral transduction

tag: time


title: UMSCC25_2w_rep2

value: after 14 days of culture post lentiviral transduction


title: biopsy_Ulcerative _04

description: Patient 04 Ulcerative Colitis


title: UMSCC25_2w_rep1


title: biopsy_Ulcerative _03

description: Patient 03 Ulcerative Colitis


title: biopsy_Ulcerative _10

description: Patient 10 Ulcerative Colitis


title: UMSCC25_2w_rep4


title: biopsy_Ulcerative _05

description: Patient 05 Ulcerative Colitis


title: UMSCC25_2d_rep2

treatment_protocol: Cells were treated with media containing lentiviral kinome shRNA library. Genomic DNA was isolated after 48 hrs of culture post lentiviral transduction


title: biopsy_Ulcerative _23

description: Patient 23 Ulcerative Colitis


title: biopsy_Ulcerative _15

description: Patient 15 Ulcerative Colitis


title: UMSCC25_2d_rep1

value: after 48 hrs of culture post lentiviral transduction


title: UMSCC8_2w_rep4


title: UMSCC25_2d_rep4


title: biopsy_Ulcerative _01

description: Patient 01 Ulcerative Colitis


title: UMSCC8_2w_rep2


title: biopsy_Healthy_57

description: Patient 57 Healthy


title: UMSCC8_2w_rep1


title: UMSCC8_2d_rep3


title: UMSCC8_2w_rep3


title: UMSCC8_2d_rep4


title: biopsy_Healthy_56

description: Patient 56 Healthy


title: biopsy_Healthy_53

description: Patient 53 Healthy


title: biopsy_Ulcerative _02

description: Patient 02 Ulcerative Colitis


title: UMSCC8_2d_rep2


title: JHU011_2w_rep4


title: JHU011_2w_rep2


title: UMSCC8_2d_rep1


title: JHU011_2d_rep4


title: biopsy_Healthy_51

description: Patient 51 Healthy


title: JHU011_2d_rep2


title: JHU011_2w_rep1


title: JHU011_2d_rep3


title: biopsy_Healthy_50

description: Patient 50 Healthy


title: SLE Patient 2 SLE2

type: RNA

city: Nanjing

first: Weiwei

last: Chen

address: Department of Rheumatology and Immunology

institute: Nanjing Drum Tower Hospital

description: Gene expression data of PBMCs from patients with systemic lupus erythematosus

hyb_protocol: The GeneFilters were prehybridized for 2 h at 51C with 0.5 mg/ml of poly-dA (Invitrogen) and 0.5 mg/ml Cot-1 DNA (Invitrogen) in 10 ml of AlkPhos DIRECT hybridization buffer (Amersham Bioscience) and then hybridized for 17 h at 51C with the denatured radi

scan_protocol: The arrays were then exposed for 2 hours to an Imaging Plate and scanned at 25-mm resolution with a BAS5000 phosphoimager (Fuji Photo Film), images of the hybridized arrays were processed with L Process (Fuji Photo Film) and signal intensities quantified

data_processing: The raw data were re-scaled to account for the differences in individual hybridization intensities.  We employed a rank-invariant scaling method to select genes (Tseng et al., 2001), which were then used for fitting of a non-linear normalization curve.  A

label: biotin

source_name: Systemic lupus erythematosus

label_protocol: Five mg of total RNA was reverse-transcribed using oligo-dT primers (Invitrogen) and SuperScript II reverse transcriptase (Invitrogen) in the presence of 100 mCi of [33P]dCTP (Amersham Bioscience, Piscataway, NJ) according to the instructions for the Gene

extract_protocol: On average, 50 7 um-thick cryostat sections were prepared for the extraction of total RNA from tumor cell-rich areas, which were identified by a surgical pathologist (YY) using every 10th section stained by May-Giemsa. Careful attention was paid to the mi

value: PBMCs


title: HN12_2w_rep3


title: HN12_2w_rep4


title: Healthy control 2 HC2

description: Gene expression data of PBMCs from healthy controls

source_name: Healthy control


title: SLE Patient 3 SLE3


title: SLE Patient 1 SLE1


title: Healthy control 3 HC3


title: biopsy_Healthy_49

description: Patient 49 Healthy


title: HN12_2w_rep2


title: HN12_2w_rep1


title: Healthy control 1 HC1


title: biopsy_Healthy_48

description: Patient 48 Healthy


title: HN12_2d_rep4


title: HN12_2d_rep3


title: biopsy_Healthy_55

description: Patient 55 Healthy


title: biopsy_Healthy_47

description: Patient 47 Healthy


title: HN12_2d_rep2


title: biopsy_Healthy_46

description: Patient 46 Healthy


title: HN12_2d_rep1


title: E13_MS118_118 (SingleCell235)

description: Cynomolgus Embryo at E13


title: biopsy_Healthy_45

description: Patient 45 Healthy


title: biopsy_Healthy_44

description: Patient 44 Healthy


title: biopsy_Healthy_43

description: Patient 43 Healthy


title: HN6_2w_rep4


title: HN6_2w_rep2


title: HN6_2d_rep4


title: HN6_2d_rep2


title: HN6_2w_rep3


title: HN6_2d_rep1


title: HN6_2w_rep1


title: biopsy_Healthy_42

description: Patient 42 Healthy


title: biopsy_Healthy_41

description: Patient 41 Healthy


title: HN6_2d_rep3


title: Cal27_2w_rep4


title: Cal27_2w_rep2


title: Cal27_2w_rep3


title: Cal27_2w_rep1


title: biopsy_Healthy_32

description: Patient 32 Healthy


title: Cal27_2d_rep4


title: biopsy_Healthy_34

description: Patient 34 Healthy


title: Cal27_2d_rep1


title: Cal27_2d_rep3


title: biopsy_Healthy_30

description: Patient 30 Healthy


title: Cal27_2d_rep2


title: C9oF_MS130_015 (SingleCell039)

description: CMK9 ESCs were cultured in DK20 on feeder condition and treated by SC3seq method

value: undifferentiated CMK9 ESC


title: UMSCC25_AZD8931_rep3

treatment_protocol: Cells were treated with AZD8931 for a period of 72 hrs and allowed to recover in media for 72 hrs. genomic DNA was isolated at 144 hrs

tag: agent

value: AZD8931 treated


title: UMSCC25_AZD8931_rep2


title: biopsy_Healthy_28

description: Patient 28 Healthy


title: UMSCC25_AZD8931_rep1


title: C9oF_MS130_012 (SingleCell037)


title: biopsy_Healthy_24

description: Patient 24 Healthy


title: UMSCC25_DMSO_rep1

treatment_protocol: Cells were treated with DMSO for a period of 72 hrs and allowed to recover in media for 72 hrs. genomic DNA was isolated at 144 hrs

value: DMSO


title: UMSCC25_DMSO_rep2


title: C9oF_MS130_011 (SingleCell036)


title: UMSCC25_DMSO_rep3


title: biopsy_Healthy_19

description: Patient 19 Healthy

value: healthy


title: C9oF_MS130_010 (SingleCell035)


title: UMSCC8_AZD8931_rep2


title: biopsy_Healthy_18

description: Patient 18 Healthy


title: biopsy_Healthy_17

description: Patient 17 Healthy


title: UMSCC8_AZD8931_rep3


title: C9oF_MS130_016 (SingleCell040)


title: UMSCC8_DMSO_rep3


title: JHU011_AZD8931_rep2


title: C9oF_MS130_009 (SingleCell034)


title: C6oF_MS132_219 (SingleCell033)

value: undifferentiated CMK6 ESC


title: biopsy_Healthy_14

description: Patient 14 Healthy


title: biopsy_Healthy_12

description: Patient 12 Healthy


title: JHU011_DMSO_rep3


title: JHU011_AZD8931_rep3


title: UMSCC8_DMSO_rep1


title: biopsy_Healthy_16

description: Patient 16 Healthy


title: JHU011_AZD8931_rep1


title: C9oF_MS130_013 (SingleCell038)


title: C6oF_MS132_216 (SingleCell031)

description: CMK6 ESCs were cultured in DK20 on feeder condition and treated by SC3seq method


title: JHU011_DMSO_rep2


title: UMSCC8_AZD8931_rep1


title: biopsy_Healthy_05

description: Patient 05 Healthy


title: JHU011_DMSO_rep1


title: UMSCC8_DMSO_rep2


title: C6oF_MS130_077 (SingleCell029)


title: C6oF_MS130_079 (SingleCell030)


title: C6oF_MS130_008 (SingleCell028)


title: HN12_AZD8931_rep2


title: HN12_AZD8931_rep3


title: biopsy_Healthy_06

description: Patient 06 Healthy


title: biopsy_Healthy_04

description: Patient 04 Healthy


title: C6oF_MS132_217 (SingleCell032)


title: HN12_DMSO_rep2


title: C6oF_MS130_007 (SingleCell027)


title: HN12_DMSO_rep1


title: biopsy_Healthy_03

description: Patient 03 Healthy


title: Cal27_AZD8931_rep3


title: Cal27_AZD8931_rep2


title: C6oF_MS130_006 (SingleCell026)


title: Cal27_AZD8931_rep1


title: biopsy_Healthy_02

description: Patient 02 Healthy


title: biopsy_Crohns_63

description: Patient 63 Crohns Disease

value: Crohns


title: Cal27_DMSO_rep3


title: C6oF_MS130_005 (SingleCell025)

value: not applicable


title: C6oF_MS130_004 (SingleCell024)


title: biopsy_Crohns_62

description: Patient 62 Crohns Disease


title: HN12_DMSO_rep3


title: HN12_AZD8931_rep1


title: biopsy_Crohns_61

description: Patient 61 Crohns Disease


title: C6oF_MS130_001 (SingleCell021)


title: C6oF_MS130_002 (SingleCell022)


title: biopsy_Crohns_59

description: Patient 59 Crohns Disease


title: Cal27_DMSO_rep2


title: Cal27_DMSO_rep1


title: biopsy_Crohns_58

description: Patient 58 Crohns Disease


title: BTAGd0_MS168_060 (SingleCell020)

description: 656BTAG42 ESCs were cultured in AITS medium and treated by SC3seq method

value: undifferentiated 656BTAG42 ESC


title: biopsy_Crohns_56

description: Patient 56 Crohns Disease


title: BTAGd0_MS168_058 (SingleCell018)


title: BTAGd0_MS168_057 (SingleCell017)


title: biopsy_Crohns_55

description: Patient 55 Crohns Disease


title: BTAGd0_MS168_055 (SingleCell015)


title: biopsy_Crohns_60

description: Patient 60 Crohns Disease


title: C6oF_MS130_003 (SingleCell023)


title: BTAGd0_MS168_056 (SingleCell016)


title: biopsy_Crohns_53

description: Patient 53 Crohns Disease


title: BTAGd0_MS168_059 (SingleCell019)


title: biopsy_Crohns_57

description: Patient 57 Crohns Disease


title: BTAGd0_MS168_053 (SingleCell013)


title: BTAG_GKd8_MS168_098 (SingleCell012)

description: BTAG positive cells during cyPGCLC induction with GK15 basal medium were sorted and treated by SC3seq method

value: BTAG positive cell at day8 during cyPGCLC induction


title: biopsy_Crohns_51

description: Patient 51 Crohns Disease


title: BTAG_GKd8_MS168_097 (SingleCell011)


title: biopsy_Crohns_49

description: Patient 49 Crohns Disease


title: biopsy_Crohns_48

description: Patient 48 Crohns Disease


title: BTAGd0_MS168_054 (SingleCell014)


title: biopsy_Crohns_52

description: Patient 52 Crohns Disease


title: biopsy_Crohns_54

description: Patient 54 Crohns Disease


title: biopsy_Crohns_47

description: Patient 47 Crohns Disease


title: BTAG_GKd8_MS168_095 (SingleCell009)


title: biopsy_Crohns_50

description: Patient 50 Crohns Disease


title: BTAG_GKd8_MS168_096 (SingleCell010)


title: BTAG_GKd8_MS168_094 (SingleCell008)


title: biopsy_Crohns_46

description: Patient 46 Crohns Disease


title: biopsy_Crohns_45

description: Patient 45 Crohns Disease


title: BTAG_GKd8_MS168_093 (SingleCell007)


title: BTAG_aRBd8_MS168_104 (SingleCell006)

description: BTAG positive cells during cyPGCLC induction with aRB27 basal medium were sorted and treated by SC3seq method


title: biopsy_Crohns_44

description: Patient 44 Crohns Disease


title: biopsy_Crohns_43

description: Patient 43 Crohns Disease


title: biopsy_Crohns_42

description: Patient 42 Crohns Disease


title: BTAG_aRBd8_MS168_102 (SingleCell004)


title: BTAG_aRBd8_MS168_103 (SingleCell005)


title: BTAG_aRBd8_MS168_101 (SingleCell003)


title: biopsy_Crohns_41

description: Patient 41 Crohns Disease


title: biopsy_Crohns_38

description: Patient 38 Crohns Disease


title: BTAG_aRBd8_MS168_100 (SingleCell002)


title: BTAG_aRBd8_MS168_099 (SingleCell001)


title: 22_MS173_102 (Bulk_038)

data_processing:
Samples were sequenced on NextSeq and SOLiD sequencer with the read length are 76 and 50 bases.
All the reads were surveyed and the adaptor or the poly-A sequences were trimmed by cutadapt-1.3 with options "-e 0.1 -q 20 -n 2 -O 1 -m 30 -a CTCGAGGGCGCGCCGGATCC -g CTCGAGGGCGCGCCGGATCC -a AAAAAAAAAAAAAAAAAAAA -a TTTTTTTTTTTTTTTTTTTT". The trimmed reads with less than 30 bp were discarded.
Untrimmed and trimmed reads of 30 bp or longer were mapped onto the mouse genome GRCm38 or Cynomolgus monkey genome Macfac5.0 and the ERCC spike-in RNA sequences with tophat-1.4.1/bowtie1.0.1 with the “—no-coverage-search” option.
Mapped reads on the genome and the ERCC were separated, and the reads on the genome were converted into the expression levels by cufflinks-2.2.0 using the “—compatible-hits-norm”,  “—max-mle-iterations 50000", “—no-length-correction” and “—library-type fr-secondstrand” options and GRCm38 or macfas5.0 reference gene annotations with extended TTSs. For the reference gene annotations used in cufflinks, we extended the TTSs of the reference genes up to 10 kb downstream to correctly estimate the expression levels of genes whose transcripts are longer than the reference toward the 3 prime.
Genome_build: macfas5.0
Genome_build: GRCm38
Supplementary_files_format_and_content: tab-delimited text files include RPM values for each Sample ...

source_name: undifferentiated ESC

growth_protocol: Undifferentiated cyESCs were cultured in AITS medium containing 20ng/mL bFGF and 2.5nM IWR1 or DK20 containing 10ng/mL bFGF.

extract_protocol:
The cells were pelleted down and snap frozen until use.  RNA samples were extracted with RNeasy kit following manufacturer's protocol.
Purified 1ng total RNA
For 3'-seq analysis, cDNA synthesis / amplification from RNA samples and library construction from the cDNAs were performed as described previously [Nakamura et al. 2015, NAR, 43, e60].
3'RNA-seq [Nakamura et al. 2015, NAR, 43, e60]

treatment_protocol:
For cyPGCLCs, undifferentiated ESCs were dissociated and replated to low-adherent V-bottom plates to form aggregates with BMP4 (200 ng/ml), SCF (100 ng/ml), EGF (50 ng/ml), LIF(1000U/ml), and Y27632 (10µM) in GMEM containing 15% KSR or Advanced RPMI1640 containing B27, until the harvest day.
For msPGCLCs, EpiLC was first induced from naive state ESCs then they were dissociated and replated to low-adherent V-bottom plates to form aggregates with BMP4 (200 ng/ml), SCF (100 ng/ml), EGF (50 ng/ml), LIF(1000U/ml), and Y27632 (10µM) in GMEM containing 15% KSR, until the harvest day. [Hayashi et al, 2011, Cell]

tag: transgenes

tag: culture/induction condition

value: undifferentiated ESC


title: biopsy_Crohns_active_52 [sCD52a]

first: Rachel

middle: Siobhain

last: Fitzgerald

state: Cork

department: BIOSCIENCES INSTITUTE

description: Patient 52 Crohns inflamed biopsy

hyb_protocol: Four µl of bisulphite-converted DNA were used for hybridization, following the Illumina Infinium HD Methylation protocol. This consisted of a whole genome amplification step followed by enzymatic end-point fragmentation, precipitation and resuspension. The resuspended samples were hybridized on Human Methylation 450 BeadChips at 48°C for 16 h – 24h. Then unhybridized and non-specifically hybridized DNA was washed away, followed by a single nucleotide primer extension using the hybridized bisulphite-treated DNA as a template.

scan_protocol: The Illumina iScan scanner is a two-colour laser (532 nm-658 nm) fluorescent scanner with a 0.53 µm spatial resolution capable of exciting the fluorophores.

data_processing: The intensities of the images were extracted using GenomeStudio Methylation module software.

label: biotin and 2,4-dinitrophenol

label_protocol: The nucleotides incorporated were labelled with biotin (ddCTP and ddGTP) and 2,4-dinitrophenol (DNP) (ddATP and ddTTP). After the single base extension, repeated rounds of staining were performed with a combination of antibodies that differentiated DNP and biotin by fixing them different fluorophores.

tag: subject status

value: inflammatory bowel disease; Crohns

tag: subject id

value: Patient 52

tag: smoker

value: NonSmoker

value: Colonic Biopsy

tag: tissue subtype

value: Crohns inflamed biopsy


title: biopsy_Crohns_32

description: Patient 32 Crohns Disease

value: Male


title: biopsy_Healthy_inactive_56.1 [sHT56.1]

description: Patient 56 Healthy non-inflamed biopsy

value: Healthy

value: Patient 56

value: ExSmoker

value: Healthy non-inflamed biopsy


title: 681F_MS173_101 (Bulk_037)


title: biopsy_Healthy_inactive_55.1 [sHT55.1]

description: Patient 55 Healthy non-inflamed biopsy

value: Patient 55

value: Female


title: biopsy_Crohns_inactive_48 [sCD48i]

description: Patient 48 Crohns non-inflamed biopsy

value: Patient 48

value: Crohns non-inflamed biopsy


title: biopsy_Healthy_inactive_51.1 [sHT51.1]

description: Patient 51 Healthy non-inflamed biopsy

value: Patient 51


title: biopsy_Crohns_36

description: Patient 36 Crohns Disease

value: Crohns


title: 656_MS173_097 (Bulk_036)

value: undifferentiated ESC


title: biopsy_Crohns_30

description: Patient 30 Crohns Disease


title: biopsy_Crohns_active_36 [sCD36a]

description: Patient 36 Crohns inflamed biopsy

value: inflammatory bowel disease; Crohns

value: Patient 36

value: Smoker


title: biopsy_Crohns_active_38 [sCD38a]

description: Patient 38 Crohns inflamed biopsy

value: Patient 38

value: NonSmoker

value: Colonic Biopsy


title: biopsy_Healthy_inactive_42.1 [sHT42.1]

description: Patient 42 Healthy non-inflamed biopsy

value: Healthy

value: Patient 42

value: Male


title: biopsy_Crohns_active_31 [sCD31a]

description: Patient 31 Crohns inflamed biopsy

value: Patient 31

value: Crohns inflamed biopsy


title: biopsy_Crohns_inactive_38 [sCD38i]

description: Patient 38 Crohns non-inflamed biopsy

value: Female


title: biopsy_Crohns_31

description: Patient 31 Crohns Disease


title: biopsy_Crohns_inactive_31 [sCD31i]

description: Patient 31 Crohns non-inflamed biopsy


title: biopsy_Crohns_active_56 [sCD56a]

description: Patient 56 Crohns inflamed biopsy

value: Patient 56


title: biopsy_Crohns_inactive_36 [sCD36i]

description: Patient 36 Crohns non-inflamed biopsy

value: Crohns non-inflamed biopsy


title: biopsy_Crohns_inactive_56 [sCD56i]

description: Patient 56 Crohns non-inflamed biopsy


title: biopsy_Crohns_inactive_53 [sCD53i]

description: Patient 53 Crohns non-inflamed biopsy

value: Patient 53


title: biopsy_Crohns_26

description: Patient 26 Crohns Disease

value: Crohns


title: ESC_MS162_081 (Bulk_024)

source_name: d0 of cyPGCLC induction (undifferentiated ESC)

value: Blimp1-tdTomato, TFAP2C-EGFP


title: ESC_MS162_067 (Bulk_010)

value: d0 of cyPGCLC induction (undifferentiated ESC)


title: biopsy_Crohns_inactive_41 [sCD41i]

description: Patient 41 Crohns non-inflamed biopsy

value: inflammatory bowel disease; Crohns

value: Patient 41


title: biopsy_Crohns_inactive_12 [sCD12i]

description: Patient 12 Crohns non-inflamed biopsy

value: Patient 12

value: Smoker


title: biopsy_Crohns_28

description: Patient 28 Crohns Disease


title: biopsy_Crohns_active_28 [sCD28a]

description: Patient 28 Crohns inflamed biopsy

value: Patient 28

value: Colonic Biopsy


title: biopsy_Crohns_inactive_30 [sCD30i]

description: Patient 30 Crohns non-inflamed biopsy

value: Patient 30


title: biopsy_Crohns_active_12 [sCD12a]

description: Patient 12 Crohns inflamed biopsy

value: Male


title: biopsy_Crohns_25

description: Patient 25 Crohns Disease


title: ESC_MS134_048 (Bulk_006)


title: biopsy_Crohns_active_30 [sCD30a]

description: Patient 30 Crohns inflamed biopsy


title: biopsy_Crohns_active_41 [sCD41a]

description: Patient 41 Crohns inflamed biopsy

value: NonSmoker


title: ESC_MS134_044 (Bulk_003)


title: ESC_MS162_073 (Bulk_016)


title: CMK6_MS116_014 (Bulk_002)

value: undifferentiated ESC


title: biopsy_Crohns_inactive_52 [sCD52i]

description: Patient 52 Crohns non-inflamed biopsy

value: Patient 52

value: Female


title: biopsy_Crohns_23

description: Patient 23 Crohns Disease


title: biopsy_Crohns_inactive_43 [sCD43i]

description: Patient 43 Crohns non-inflamed biopsy

value: Patient 43

value: Crohns non-inflamed biopsy


title: d6BV_MS010_018 (Bulk_042)

organism: Mus musculus

source_name: d6 during mouse PGCLC induction

value: Blimp1-membraneVenus, Dppa3-ECFP

value: d6 during mouse PGCLC induction


title: GKd10_MS162_088 (Bulk_030)

source_name: BTAG positive cells at d10 during cyPGCLC induction

value: Blimp1-tdTomato, TFAP2C-EGFP


title: d6BV_MS010_006 (Bulk_040)


title: GKd10_MS162_072 (Bulk_015)

value: BTAG positive cells at d10 during cyPGCLC induction


title: biopsy_Crohns_20

description: Patient 20 Crohns Disease

value: Crohns


title: CMK6_MS116_002 (Bulk_001)


title: d4BV_MS010_016 (Bulk_041)

source_name: d4 during mouse PGCLC induction

value: d4 during mouse PGCLC induction


title: biopsy_Crohns_19

description: Patient 19 Crohns Disease


title: GKd08_MS162_087 (Bulk_029)

source_name: BTAG positive cells at d8 during cyPGCLC induction


title: biopsy_Crohns_29

description: Patient 29 Crohns Disease


title: GKd08_MS162_071 (Bulk_014)

value: BTAG positive cells at d8 during cyPGCLC induction


title: d4BV_MS010_004 (Bulk_039)


title: biopsy_Crohns_18

description: Patient 18 Crohns Disease


title: GKd06_MS162_070 (Bulk_013)

source_name: BTAG positive cells at d6 during cyPGCLC induction


title: biopsy_Crohns_21

description: Patient 21 Crohns Disease


title: biopsy_Crohns_inactive_26 [sCD26i]

description: Patient 26 Crohns non-inflamed biopsy

value: inflammatory bowel disease; Crohns

value: Patient 26

value: ExSmoker


title: biopsy_Crohns_active_26 [sCD26a]

description: Patient 26 Crohns inflamed biopsy

value: Male

value: Colonic Biopsy

value: Crohns inflamed biopsy


title: biopsy_Crohns_17

description: Patient 17 Crohns Disease


title: biopsy_Crohns_16

description: Patient 16 Crohns Disease


title: 12h-3 spleen miRNAseq

city: chengdu

first: Han

last: Zhao

address: Xiyuan avenue,

description: micRNA derived from spleen tissue of Leiocassis longirostris  with infected 3

data_processing:
nitial sequence was subjected to a series of stringent filters (such as removing low quality-reads, repeated sequences and adaptor sequences) and the output was called clean data. Filtered sequences then were mapped to Zebrafish reference genome with stringent criteria.
For each sample, counts were first normalized by the total count of mappable reads which is denoted as reads per million (RPM).
Genome_build: Danio rerio (assembly GRCz11).miRbase release 21
Supplementary_files_format_and_content: Identified miRNAs in each library with count reads and normalized data

organism: Leiocassis longirostris

source_name: spleen

growth_protocol: A. hydrophila was cultured in Todd-Hewitt agar (THA) at 25°C with moderate shaking at 125 rpm. Forty Leiocassis longirostris (average initial weight: 24.25 ± 0.40 g, length: 11.75 ± 0.30 cm) were obtained from the breeding and releasing station that is affiliated with the Fisheries Institute, Sichuan Academy of Agricultural Sciences

extract_protocol:
Total RNA was extracted from the L. longirostris tissues using TRIzol (Takara, Dalian, China) according to the manufacturer’s instructions.
micRNA libraries were prepared for sequencing using standard Illumina protocols

treatment_protocol: Twenty fish were anaesthetized and each was injected intraperitoneally with a 3.0 × 107 cfu that was suspended in 100 μL phosphate buffered saline (PBS, pH 7.2) (EG). The remaining 20 fish per group received only PBS (pH 7.2) as a control (CG).

value: spleen

tag: age

value: fingerling

value: Aeromonas hydrophila infection


title: 12h-2 spleen miRNAseq

institute: Fisheries Institute, Sichuan Academy of Agricultural Sciences

description: micRNA derived from spleen tissue of Leiocassis longirostris  with infected 2

tag: tissue


title: GKd06_MS134_046 (Bulk_005)

value: BTAG positive cells at d6 during cyPGCLC induction


title: GKd04AG_MS162_085 (Bulk_028)

source_name: AG mid positive cells at d4 during cyPGCLC induction


title: biopsy_Crohns_12

description: Patient 12 Crohns Disease


title: 12h-1 spleen miRNAseq

description: micRNA derived from spleen tissue of Leiocassis longirostris  with infected 1


title: GKd06_MS134_049 (Bulk_007)


title: GKd04AG_MS134_045 (Bulk_004)

value: AG mid positive cells at d4 during cyPGCLC induction


title: biopsy_Crohns_13

description: Patient 13 Crohns Disease

value: Female


title: D4_SOX2_deltaHMG_rep2

city: Guangzhou

first: Yiwei

last: Lai

state: Guangdong

address: 190 Kai Yuan Avenue, Science Park

department: South China Institute for Stem Cell Biology and Regenerative Medicine Key Laboratory of Regenerative Biology, CAS

institute: Guangzhou Institutes of Biomedicine and Health,Chinese Academy of Sciences

description: processed data file: D4_Sox2_WT_vs_D4_Sox2_deltaHMG_output.tar.gz

data_processing:
Illumia bcl2fastq2.17 software was used for basecalling.
Data were aligned to the mm10 mouse genome assembly using Tophat (v2.1.0) with default settings.
Differential spliced gene were found using rMATS (v4.0.1) according to GENCODE vM15 transcript models with false discovery rate (FDR) lower than 0.05.
Genome_build: mm10
Supplementary_files_format_and_content: rMATs output files. The processed data files were generated based on comparison between different samples and merged replicates.

growth_protocol: MEFs were maintained in DMEM/high glucose (Hyclone, Cat#SH30022-2B) containing 10% fetal bovine serum (FBS) (Natocor, Cat#SFBE), 1×GlutaMax (Gibco, Cat#35050079), 1×MEM nonessential amino acids (Corning, Cat#25-025-CI), and 0.5×penicillin/streptomycin. HEK293T cells and Plat-E cells were maintained in DMEM/high glucose containing 10% FBS(Natocor, Cat#SFBE). OG2 MEFs were obtained from E13.5 embryos carrying the Oct4-GFP transgene following standard procedures.IPSCs were maintained in mouse ESC medium [DMEM/high glucose (Hyclone, Cat#SH30022-2B) containing 15% FBS (Natocor, Cat#SFBE),  1×GlutaMax (Gibco, Cat#35050079), 1×MEM nonessential amino acids (Corning, Cat#25-025-CI), 1×Sodium Pyruvate (Corning, Cat#25-000-CI), 1×2-Mercaptoethanol (Gibco, Cat#21985023), 0.5×penicillin/streptomycin (Hyclone, Cat#SV30010) with the presence of 1,000 U/ml Leukemia inhibitory factor (produced at the GIBH core facility)] at day 1 post-infection and renewed daily.

extract_protocol:
RNA-seq samples were isolated using the TRIzol™ Reagent (ThermoFisher Scientific, Cat#15596026) from reprogramming OG2-MEFs at day 12 post-infection.
A total amount of 1μg RNA per sample was used as input material for the library preparation. The sequencing libraries were generated using the VAHTS mRNA-seq v2 Library Prep Kit for Illumina® (Vazyme, Cat#NR601) following the manufacturer’s recommendations
Library were sequenced on an Illumina Hiseq X Ten platform with 6G base PE150 reads.

treatment_protocol: Sox2, Sox2delta(120-180) or Sox2deltaHMG were transduced alongside Oct4, Klf4 and c-Myc into OG2-MEFs using retroviral particles prepared with pMX vectors

value: OG2-MEFs reprogramming to iPSCs

tag: genotype/variation

tag: time point


title: DZ-3 spleen miRNAseq

description: micRNA derived from spleen tissue of Leiocassis longirostris  with noinfected 3

value: PBS control


title: biopsy_Healthy_inactive_49.1 [sHT49.1]

description: Patient 49 Healthy non-inflamed biopsy

value: Healthy

value: Patient 49

value: NonSmoker

value: Healthy non-inflamed biopsy


title: biopsy_Crohns_10

description: Patient 10 Crohns Disease

value: Crohns


title: DZ-2 spleen miRNAseq

description: micRNA derived from spleen tissue of Leiocassis longirostris  with noinfected 2


title: biopsy_Crohns_11

description: Patient 11 Crohns Disease


title: biopsy_Crohns_active_48 [sCD48a]

description: Patient 48 Crohns inflamed biopsy

value: inflammatory bowel disease; Crohns

value: Patient 48


title: GKd04_MS162_069 (Bulk_012)

source_name: BTAG positive cells at d4 during cyPGCLC induction

tag: cell line

value: Blimp1-tdTomato, TFAP2C-EGFP

tag: cell type


title: D4_SOX2_deltaHMG_rep1


title: GKd04_MS162_084 (Bulk_027)

value: BTAG positive cells at d4 during cyPGCLC induction


title: biopsy_Crohns_09

description: Patient 09 Crohns Disease

tag: gender

value: Male


title: biopsy_Healthy_inactive_19.1 [sHT19.1]

description: Patient 19 Healthy non-inflamed biopsy

value: Patient 19

value: Colonic Biopsy


title: DZ-1 spleen miRNAseq

description: micRNA derived from spleen tissue of Leiocassis longirostris  with noinfected 1

value: spleen

value: fingerling


title: biopsy_Crohns_active_43 [sCD43a]

description: Patient 43 Crohns inflamed biopsy

value: Patient 43

value: Smoker

value: Crohns inflamed biopsy


title: biopsy_Crohns_22

description: Patient 22 Crohns Disease

tag: disease state


title: GKd02AG_MS162_083 (Bulk_026)

source_name: AG mid positive cells at d2 during cyPGCLC induction


title: D8_SOX2_deltaHMG_rep2

description: processed data file: D8_Sox2_WT_vs_D8_Sox2_deltaHMG_output.tar.gz

value: OG2-MEFs reprogramming to iPSCs


title: 12h-3 spleen mRNAseq

description: mRNA derived from spleen tissue of Leiocassis longirostris  with infected 3

data_processing:
Quality control of all raw reads was conducted with Fastqc (http://www.bioinformatics.babraham.ac.uk/projects/fastqc/).
After filtering, the remaining reads were called “Clean Reads” and stored in the FASTQ format. Trinity was used to perform de novo assembly to generate reference sequences with clean reads.
The following databases were used for annotation with the same E-value cutoffs of ≤ 1 × 10-5; NCBI nonredundant (Nr; http://www.ncbi.nlm.nih.gov/), the Clusters of Orthologous Groups (COG; http://www.ncbi.nlm.nih.gov/COG/), and the Kyoto Encyclopedia of Genes and Genomes (KEGG; http://www.genome.jp/kegg/), and BlastP (Version 2.2.25) for unigenes containing open reading frames (ORFs), and BlastX for unigenes without an ORF.
Genome_build: de novo
Supplementary_files_format_and_content: RSEM (1.3.0) was then used to estimate and quantify gene and isoform abundances. DESeq was used to normalize the expression level. Then, the fragments per kilobase of transcripts per million fragments were mapped (FPKM), and values were further analyzed using RESM to identify the differentially expressed genes

extract_protocol:
Total RNA was extracted from the L. longirostris tissues using TRIzol (Takara, Dalian, China) according to the manufacturer’s instructions.
mRNA libraries were prepared for sequencing using standard Illumina protocols

tag: treatment

value: Aeromonas hydrophila infection


title: biopsy_Crohns_07

description: Patient 07 Crohns Disease


title: biopsy_Crohns_active_17 [sCD17a]

description: Patient 17 Crohns inflamed biopsy

value: Patient 17

value: Female

value: ExSmoker


title: GKd02_MS162_082 (Bulk_025)

source_name: BTAG positive cells at d2 during cyPGCLC induction


title: 12h-2 spleen mRNAseq

description: mRNA derived from spleen tissue of Leiocassis longirostris  with infected 2


title: biopsy_Crohns_inactive_17 [sCD17i]

description: Patient 17 Crohns non-inflamed biopsy

value: inflammatory bowel disease; Crohns

value: Crohns non-inflamed biopsy


title: D8_SOX2_deltaHMG_rep1


title: aRd10_MS162_080 (Bulk_023)

value: Blimp1-tdTomato, TFAP2C-EGFP

value: BTAG positive cells at d10 during cyPGCLC induction


title: biopsy_Crohns_active_53 [sCD53a]

description: Patient 53 Crohns inflamed biopsy

value: Patient 53

value: NonSmoker


title: biopsy_Crohns_06

description: Patient 06 Crohns Disease

value: Male

value: Crohns


title: D12_SOX2_deltaHMG_rep2

description: processed data file: D12_Sox2_WT_vs_D12_Sox2_deltaHMG_output.tar.gz


title: biopsy_Crohns_inactive_08 [sCD08i]

description: Patient 08 Crohns non-inflamed biopsy

value: Patient 08

value: Colonic Biopsy


title: GKd02_MS162_068 (Bulk_011)

value: BTAG positive cells at d2 during cyPGCLC induction


title: biopsy_Crohns_active_08 [sCD08a]

description: Patient 08 Crohns inflamed biopsy

value: Crohns inflamed biopsy


title: 12h-1 spleen mRNAseq

description: mRNA derived from spleen tissue of Leiocassis longirostris  with infected 1

value: spleen

value: fingerling


title: biopsy_Crohns_05

description: Patient 05 Crohns Disease


title: D12_SOX2_deltaHMG_rep1

value: OG2-MEFs reprogramming to iPSCs


title: biopsy_Crohns_08

description: Patient 08 Crohns Disease

value: Female


title: DZ-3 spleen mRNAseq

description: mRNA derived from spleen tissue of Leiocassis longirostris  with noinfected 3

value: PBS control


title: biopsy_Crohns_04

description: Patient 04 Crohns Disease


title: aRd08_MS162_079 (Bulk_022)

value: BTAG positive cells at d8 during cyPGCLC induction


title: biopsy_Crohns_24

description: Patient 24 Crohns Disease


title: biopsy_Crohns_03

description: Patient 03 Crohns Disease


title: aRd06_MS162_093 (Bulk_035)

value: BTAG positive cells at d6 during cyPGCLC induction


title: DZ-2 spleen mRNAseq

description: mRNA derived from spleen tissue of Leiocassis longirostris  with noinfected 2


title: D4_SOX2_delta(120-180)_rep1

description: D4_Sox2_WT_vs_D4_Sox2_delta(120-180)_output.tar.gz

data_processing:
Illumia bcl2fastq2.17 software was used for basecalling.
Data were aligned to the mm10 mouse genome assembly using Tophat (v2.1.0) with default settings.
Differential spliced gene were found using rMATS (v4.0.1) according to GENCODE vM15 transcript models with false discovery rate (FDR) lower than 0.05. The G/C content of the 5’ splice site was analysis for 400 nt windows centered at the 5’ splice sites of the 1102 AS-affected exons. The control set contains corresponding regions for 22,752 exons. GO analysis was performed using metascape.
Genome_build: mm10
Supplementary_files_format_and_content: rMATs output files.  The processed data files were generated based on comparison between different samples and merged replicates.

extract_protocol:
RNA-seq samples were isolated using the TRIzol™ Reagent (ThermoFisher Scientific, Cat#15596026) from reprogramming OG2-MEFs up to 12 days post-infection.
A total amount of 1μg RNA per sample was used as input material for the library preparation. The sequencing libraries were generated using the VAHTS mRNA-seq v2 Library Prep Kit for Illumina® (Vazyme, Cat#NR601) following the manufacturer’s recommendations
Library were sequenced on an Illumina Hiseq X Ten platform with 6G base PE150 reads.

treatment_protocol: Sox2 or Sox2delta(120-180) were transduced alongside Oct4, Klf4 and c-Myc into OG2-MEFs using retroviral particles prepared with pMX vectors

tag: genotype

tag: time

value: day 4


title: D4_SOX2_delta(120-180)_rep2


title: DZ-1 spleen mRNAseq

description: mRNA derived from spleen tissue of Leiocassis longirostris  with noinfected 1


title: D4_SOX2_WT_rep2


title: biopsy_Crohns_02

description: Patient 02 Crohns Disease


title: aRd06_MS134_054 (Bulk_008)

tag: transgenes

value: Blimp1-tdTomato, TFAP2C-EGFP


title: aRd06_MS162_078 (Bulk_021)

tag: culture/induction condition


title: biopsy_Crohns_01

description: Patient 01 Crohns Disease


title: D8_SOX2_delta(120-180)_rep2

description: D8_Sox2_WT_vs_D8_Sox2_delta(120-180)_output.tar.gz

value: day 8


title: aRd04BT_MS162_092 (Bulk_034)

source_name: BT single positive cells at d4 during cyPGCLC induction


title: aRd06_MS134_055 (Bulk_009)


title: aRd04BT_MS162_077 (Bulk_020)

value: BT single positive cells at d4 during cyPGCLC induction


title: aRd04_MS162_076 (Bulk_019)

value: BTAG positive cells at d4 during cyPGCLC induction


title: D4_SOX2_WT_rep1


title: D12_SOX2_delta(120-180)_rep2

description: D12_Sox2_WT_vs_D12_Sox2_delta(120-180)_output.tar.gz

value: day 12


title: D8_SOX2_delta(120-180)_rep1


title: D8_SOX2_WT_rep1


title: aRd04_MS162_091 (Bulk_033)


title: aRd02AG_MS162_090 (Bulk_032)

value: AG mid positive cells at d2 during cyPGCLC induction


title: aRd02BT_MS162_075 (Bulk_018)

source_name: BT single positive cells at d2 during cyPGCLC induction


title: aRd02_MS162_089 (Bulk_031)


title: aRd02_MS162_074 (Bulk_017)

source_name: BTAG positive cells at d02 during cyPGCLC induction


title: T47D-TR-3

status: Public on Jan 28 2020

city: chongqing, China

first: qianni

last: jin

address: 1# Yixueyuan Road, Yuzhong District, Chongqing 400016, P.R. China

institute: chongqing medical university

data_processing:
Reads filtering under criteria removing reads with 20% of the base quality lower than 13.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to the human reference genome (GRCh38) using HISAT2 (version 2.1.0) .
Read counts were calculated, and then DESeq (Log2FC > 1 or < -1, FDR < 0.05) was used for differential analysis of gene expression.
Genome_build: GRCh38
Supplementary_files_format_and_content: TXT file contain counts for all samples.

growth_protocol: The human ER-positive breast cancer cell line T47D was cultured in Dulbecco’s modified Eagle’s medium (DMEM) supplemented with 10% fetal bovine serum (FBS) and 1% penicillin/streptomycin, in a humidified atmosphere of 5 % CO2 at 37℃ according to ATCC guidelines. T47D-TR, a tamoxifen-resistant subline, was derived from T47D and cultured in medium containing 1 μM 4-hydroxytamoxifen (4-OHT; Sigma Aldrich).

extract_protocol:
Cells were cllected on ice and RNA was extracted from each sample using TRIzol reagent according to the manufacturer’s instruction.
NEBNext ultra directional RNA Library Prep kit, NEBNext Poly (A) mRNA magnetic isolation module and NEBNext multiplex oligos (NEB, USA) was used with 1 ug of total RNA for the construction of sequencing libraries.

tag: cell line background

tag: cell subtype

value: tamoxifen-resistant subline


title: D12_SOX2_WT_rep1


title: D12_SOX2_delta(120-180)_rep1


title: T47D-TR-1

value: human ER-positive breast cancer cell line


title: T47D-3


title: T47D-1


title: T47D-TR-2


title: PHH-D3_rep3

city: Leuven

first: RUBEN

last: BOON

state: Vlaams Brabant

address: Herestraat 49

country: Belgium

institute: KU LEUVEN

description: replicate 3

data_processing:
Low quality ends and adpator sequences were trimmed off from the Illumina reads using trimmomatic. Small reads (length <35 bp), ambiguous reads(containing N) and low quality reads (more than 96% of the bases >= Q30) were filtered. Processed reads were mapped and aligned with Spliced Transcripts Alignment to a Reference (STAR) to the Human reference genome (GRCh38.91) with default ENCODE parameter settings, except for ‘--runThreadN 16 --sjdbOverhang 76.’  RPKM values were computed using Cufflinks and then normalized to transcripts per million (TPM).
genome build: hg38.91
Supplementary_files_format_and_content: Raw counts obtained from HTseq package in Python, TPM file in which low read values were filtered out and the data was log2 transformed.

extract_protocol: RNA was extracted with Trizol reagent. RNA libraries were prepared for sequencing using standard Illumina protocols. Sequence-libraries of each sample were sequenced on an Illumina NextSeq 500 instrument (high output, 75bp, single reads, v2.5)

treatment_protocol: Addition of amino acid and glycine supplements to media + addition of 3 transcription factors (HNF1A, FOXA3, PROX1) or addition of 6 transcription factors (HNF1A, FOXA3, PROX1, PGC-1α , Sirt1 and a constitutively active variant of AMPK)

value: Primary Hepatocytes

tag: culture conditions

value: Cultured for 72 hours

tag: culture day


title: PHH-D3_rep2

description: replicate 2


title: D8_SOX2_WT_rep2


title: HepG2 AAGLY D30_rep3

description: replicate 3

value: DMEM 10% FBS medium with AA and glycine supplement


title: HepG2 AAGLY D30_rep2

description: replicate 2


title: PHH-0h_rep1

description: replicate 1

value: Freshly isolated


title: PHH-0h_rep2

description: replicate 2


title: HepG2_rep1

description: replicate 1

value: DMEM 10% FBS medium


title: HepG2_rep3

description: replicate 3


title: HC6X AAGLY -DOX D40_rep3

description: replicate 3

data_processing:
Low quality ends and adpator sequences were trimmed off from the Illumina reads using trimmomatic. Small reads (length <35 bp), ambiguous reads(containing N) and low quality reads (more than 96% of the bases >= Q30) were filtered. Processed reads were mapped and aligned with Spliced Transcripts Alignment to a Reference (STAR) to the Human reference genome (GRCh38.91) with default ENCODE parameter settings, except for ‘--runThreadN 16 --sjdbOverhang 76.’  RPKM values were computed using Cufflinks and then normalized to transcripts per million (TPM).
genome build: hg38.91
genome build: hg38.91
Supplementary_files_format_and_content: Raw counts obtained from HTseq package in Python, TPM file in which low read values were filtered out and the data was log2 transformed.

value: H9-derived hepatoctye like cells

value: LDM with AA and glycine supplement

tag: transcription factor overexpression

value: HNF1A, FOXA3, PROX1, PGC-1α , Sirt1 and a constitutively active variant of AMPK with removal of dox at d30


title: PHH-0h_rep3

description: replicate 3


title: D12_SOX2_WT_rep2

value: OG2-MEFs reprogramming to iPSCs


title: HepG2_rep2

description: replicate 2


title: HC6X AAGLY D40_rep3

description: replicate 3

value: HNF1A, FOXA3, PROX1, PGC-1α , Sirt1 and a constitutively active variant of AMPK


title: HC6X AAGLY D40_rep4

description: replicate 4


title: HC6X AAGLY D40_rep2

description: replicate 2


title: HC6X AAGLY D40_rep1

description: replicate 1


title: T47D-2


title: HC6X AA3 D20_rep3

description: replicate 3

value: LDM with AA supplement


title: PHH-D3_rep1

description: replicate 1


title: HC6X LDM D20_rep3

description: replicate 3

value: LDM


title: HC6X AA3 D20_rep1

description: replicate 1


title: HC3X AAGLY D40_rep3

description: replicate 3

value: HNF1A, FOXA3, PROX9


title: HC6X LDM D20_rep2

description: replicate 2


title: HC3X AA3 D20_rep3

description: replicate 3

value: HNF1A, FOXA3, PROX6


title: HC3X AAGLY D40_rep2

description: replicate 2

value: HNF1A, FOXA3, PROX8


title: HC6X LDM D20_rep1

description: replicate 1


title: HepG2 AAGLY D30_rep1

description: replicate 1


title: HC3X AA3 D20_rep2

description: replicate 2

value: HNF1A, FOXA3, PROX5


title: HC3X AAGLY D40_rep1

description: replicate 1

value: HNF1A, FOXA3, PROX7


title: HC3X LDM D20_rep3

description: replicate 3

value: HNF1A, FOXA3, PROX3


title: HC3X LDM D20_rep2

description: replicate 2

value: HNF1A, FOXA3, PROX2


title: HC6X AAGLY -DOX D40_rep2

description: replicate 2


title: HC3X LDM D20_rep1

description: replicate 1

value: HNF1A, FOXA3, PROX1


title: HLC AAGLY D40_rep2

description: replicate 2


title: HC3X AA3 D20_rep1

description: replicate 1

value: HNF1A, FOXA3, PROX4


title: HLC AAGLY D40_rep3

description: replicate 3


title: HLC LDM D40_rep2

description: replicate 2


title: HLC LDM D40_rep3

description: replicate 3


title: HLC AAGLY D40_rep1

description: replicate 1


title: HC6X AAGLY -DOX D40_rep1

description: replicate 1


title: HLC LDM D20_rep2

description: replicate 2


title: HLC LDM D20_rep3

description: replicate 3


title: HLC LDM D20_rep1

description: replicate 1


title: HLC LDM D40_rep1

description: replicate 1


title: G7_062_COH69_T

city: Stanford

first: Gunsagar

middle: Singh

last: Gulati

state: CA

address: 265 Campus Drive

department: Institute for Stem Cell Biology and Regenerative Medicine, Department of Biomedical Data Science

institute: Stanford University

description:
H6_017_SU20_N_TAGCTGCA_CTAAGCCT_S263_R1_001.fastq.gz
H6_017_SU20_N_TAGCTGCA_CTAAGCCT_S263_R2_001.fastq.gz

data_processing:
Bcl2fastq2 v2.18 (Illumina) was used to extract the data and generate FASTQ files for each sample by using unique barcode combinations from the Nextera preparation. Raw FASTQ reads were then aligned to GENCODE v25 reference transcripts (GRCh38.p7) with Salmon v0.7.2 using the --seq-bias flag and otherwise default parameters. Salmon results were merged into a single gene-level TPM matrix using the R package, tximport v1.4.0. Low quality cells, identified as cells expressing <1,000 detectable genes, were excluded from further analysis. Using Seurat, clusters were identified by running ‘FindClusters’ on the first 10 principal components of the data with the resolution parameter set to 0.6. Cell labels for known epithelial subpopulations were assigned according to the expression of previously described marker genes (KRT14high, MYLKhigh = basal, MMP7high, RARRES1high = luminal progenitor, MUC1high, AREGhigh = mature luminal). Clusters with similar expression patterns of epithelial marker genes were merged and clusters lacking expression of expected markers were eliminated. These steps resulted in three remaining clusters that distinguished basal (tumor: n = 294, normal: n = 366), luminal progenitor (tumor: n = 213, normal: n = 319), and mature luminal cells (tumor: n = 354, normal: n = 356). The final expression matrix was filtered to focus on protein-coding genes approved by the HUGO Gene Nomenclature Committee (n = 19,031 genes).
Genome_build: GENCODE v25 (GRCh38.p7)
Supplementary_files_format_and_content: Tab-delimited text files include (1) Transcripts per million (TPM) values for each single cell (2) Metadata for each single cell

source_name: Breast

extract_protocol:
6 tumor biopsies from patients with luminal-like breast cancer and 2 tumor biopsies from patients with basal-like breast cancer were obtained from the primary site during surgical resection of breast tumors at Stanford Hospital and City of Hope National Medical Center. Samples were mechanically dissociated into < 1-2 mm3 pieces with a razor blade and then digested at 37 oC with 1500 U collagenase and 500 U hyaluronidase in Advanced DMEM/F12 (Thermo Fisher Scientific), 2 mM Glutamax (Invitrogen), and an antibiotic/antimycotic mix containing 120 μg/ml penicillin, 100 μg/ml streptomycin, and 0.25 μg/ml amphotericin-B (PSA) for 4-6 hrs with hourly pipetting for 5 min. After digestion, cells were treated with ACK lysis buffer to deplete red blood cells and then incubated with 10 U dispase to further dissociate the tissue into single cells and 1000 U DNase I to prevent cell clumping. Cells were filtered through a 70 μm nylon mesh and washed with staining buffer containing 2% fetal bovine serum (FBS) and PSA in Hank’s Balanced Salt Solution (HBBS). Single cell suspensions of fresh breast tissue were then stained with fluorescent antibodies to prepare for FACS. To reduce nonspecific antibody binding, single cells were blocked with 10 μg/mL rat IgG on ice for 10 minutes. Cells were then stained, in the dark, on ice for 30 minutes. FACS was performed with a 130 μm nozzle on a BD FACSAria II with BD FACSDiva software. Side scatter and forward scatter profiles (area and width) were used to eliminate debris and cell doublets. Dead cells were eliminated by excluding 4’,6-diamidino-2-phenylindole (DAPI) positive cells. Breast epithelial cells were enriched by negative gating of lineage cells expressing CD45, CD31, CD3, CD16, or CD64. Human breast basal cells were then gated as CD49fhighEPCAMmed-low, luminal progenitors as CD49fhighEPCAMhigh, and mature luminal cells as CD49flowEPCAMhigh. Single human breast cells were then sorted into 96-well plates of lysis buffer.
cDNA libraries were constructed using a modified Smart-seq2 protocol and machine-automated pipeline by the Stanford Functional Genomic Facility (SFGF), as described previously (PMIDs: 24385147 and 30241615). Notably, 27 cycles of PCR amplification were required to obtain cDNA amounts within range of the recommended concentrations (0.05 – 0.32 ng/μL) for downstream tagmentation. Wells with over-amplified cDNA were diluted. Libraries were prepared using the Nextera XT DNA Library Prep (Illumina) kit and sequenced on a NextSeq 500 (Illumina) to obtain 2x76 or 2x151 bp paired-end reads.

tag: patient

tag: clinical subtype

value: Luminal

tag: tissue

value: Tumor

tag: celltype by seurat cluster

value: Luminal progenitor

tag: er status

value: Pos

tag: pr status

tag: her status


title: G8_062_COH69_T

description:
H6_018_SU20_N_TACTACGC_TCTCTCCG_S351_R1_001.fastq.gz
H6_018_SU20_N_TACTACGC_TCTCTCCG_S351_R2_001.fastq.gz


title: G2_062_COH69_T

description:
H5_017_SU20_N_ACTGATCG_CTAAGCCT_S262_R1_001.fastq.gz
H5_017_SU20_N_ACTGATCG_CTAAGCCT_S262_R2_001.fastq.gz


title: G4_061_COH69_T

description:
H5_018_SU20_N_GTAGCTCC_TCTCTCCG_S350_R1_001.fastq.gz
H5_018_SU20_N_GTAGCTCC_TCTCTCCG_S350_R2_001.fastq.gz


title: G11_062_COH69_T

description:
H5_015_SU20_T_CGCTCAGT_GTAAGGAG_S116_R1_001.fastq.gz
H5_015_SU20_T_CGCTCAGT_GTAAGGAG_S116_R2_001.fastq.gz


title: F9_062_COH69_T

description:
H5_013_SU20_T_GTCTTAGG_TATCCTCT_S69_R1_001.fastq.gz
H5_013_SU20_T_GTCTTAGG_TATCCTCT_S69_R2_001.fastq.gz


title: G6_061_COH69_T

description:
H6_016_SU20_N_CATGCCTA_AAGGAGTA_S198_R1_001.fastq.gz
H6_016_SU20_N_CATGCCTA_AAGGAGTA_S198_R2_001.fastq.gz


title: G12_062_COH69_T

description:
H5_016_SU20_N_AGGAGTCC_AAGGAGTA_S197_R1_001.fastq.gz
H5_016_SU20_N_AGGAGTCC_AAGGAGTA_S197_R2_001.fastq.gz


title: F9_061_COH69_T

description:
H4_021_SU20_T_CCTGAGAT_AAGGCTAT_S276_R1_001.fastq.gz
H4_021_SU20_T_CCTGAGAT_AAGGCTAT_S276_R2_001.fastq.gz


title: F8_061_COH69_T

description:
H4_018_SU20_N_TAGCGAGT_TCTCTCCG_S349_R1_001.fastq.gz
H4_018_SU20_N_TAGCGAGT_TCTCTCCG_S349_R2_001.fastq.gz


title: F6_061_COH69_T

description:
H4_013_SU20_T_CGCTCAGT_TATCCTCT_S68_R1_001.fastq.gz
H4_013_SU20_T_CGCTCAGT_TATCCTCT_S68_R2_001.fastq.gz


title: F5_061_COH69_T

description:
H3_031_SU4_T_TAGCTGCA_CGTCTAAT_S311_R1_001.fastq.gz
H3_031_SU4_T_TAGCTGCA_CGTCTAAT_S311_R2_001.fastq.gz


title: HC6X AA3 D20_rep2

description: replicate 2

tag: cell type

value: H9-derived hepatoctye like cells


title: F12_061_COH69_T

description:
H3_013_SU20_T_GAGCGCTA_TATCCTCT_S67_R1_001.fastq.gz
H3_013_SU20_T_GAGCGCTA_TATCCTCT_S67_R2_001.fastq.gz


title: F2_061_COH69_T

description:
H3_017_SU20_N_CGCTCAGT_CTAAGCCT_S260_R1_001.fastq.gz
H3_017_SU20_N_CGCTCAGT_CTAAGCCT_S260_R2_001.fastq.gz


title: H3_031_SU4_T

description:
H6_021_SU20_T_GTAGCTCC_AAGGCTAT_S278_R1_001.fastq.gz
H6_021_SU20_T_GTAGCTCC_AAGGCTAT_S278_R2_001.fastq.gz

value: Basal

value: Neg


title: F11_061_COH69_T

description:
H2_018_SU20_N_TCATGAGC_TCTCTCCG_S347_R1_001.fastq.gz
H2_018_SU20_N_TCATGAGC_TCTCTCCG_S347_R2_001.fastq.gz


title: F1_061_COH69_T

description:
H2_015_SU20_T_GAGCGCTA_GTAAGGAG_S115_R1_001.fastq.gz
H2_015_SU20_T_GAGCGCTA_GTAAGGAG_S115_R2_001.fastq.gz


title: F11_062_COH69_T

description:
H2_031_SU4_T_ACTGATCG_CGTCTAAT_S310_R1_001.fastq.gz
H2_031_SU4_T_ACTGATCG_CGTCTAAT_S310_R2_001.fastq.gz


title: E9_062_COH69_T

description:
H1_031_SU4_T_GTCTTAGG_CGTCTAAT_S309_R1_001.fastq.gz
H1_031_SU4_T_GTCTTAGG_CGTCTAAT_S309_R2_001.fastq.gz


title: E9_061_COH69_T

description:
H1_020_SU20_T_TCGCCTTA_AAGGAGTA_S193_R1_001.fastq.gz
H1_020_SU20_T_TCGCCTTA_AAGGAGTA_S193_R2_001.fastq.gz


title: E8_062_COH69_T

description:
H1_018_SU20_N_TCCTCTAC_TCTCTCCG_S346_R1_001.fastq.gz
H1_018_SU20_N_TCCTCTAC_TCTCTCCG_S346_R2_001.fastq.gz


title: F10_061_COH69_T

description:
H2_013_SU20_T_CTGCGCAT_TATCCTCT_S66_R1_001.fastq.gz
H2_013_SU20_T_CTGCGCAT_TATCCTCT_S66_R2_001.fastq.gz


title: E8_061_COH69_T

description:
H1_017_SU20_N_CTGCGCAT_CTAAGCCT_S258_R1_001.fastq.gz
H1_017_SU20_N_CTGCGCAT_CTAAGCCT_S258_R2_001.fastq.gz


title: E4_061_COH69_T

description:
G9_058_SU21_T_GCTCAGGA_AAGGAGTA_S196_R1_001.fastq.gz
G9_058_SU21_T_GCTCAGGA_AAGGAGTA_S196_R2_001.fastq.gz


title: E7_062_COH69_T

description:
H1_015_SU20_T_CTGCGCAT_GTAAGGAG_S114_R1_001.fastq.gz
H1_015_SU20_T_CTGCGCAT_GTAAGGAG_S114_R2_001.fastq.gz


title: E6_061_COH69_T

description:
H1_013_SU20_T_GCAGCGTA_TATCCTCT_S65_R1_001.fastq.gz
H1_013_SU20_T_GCAGCGTA_TATCCTCT_S65_R2_001.fastq.gz


title: E5_062_COH69_T

description:
G9_060_SU21_T_CCTGAGAT_TTATGCGA_S372_R1_001.fastq.gz
G9_060_SU21_T_CCTGAGAT_TTATGCGA_S372_R2_001.fastq.gz


title: G5_061_COH69_T

description:
H5_021_SU20_T_TAGCGAGT_AAGGCTAT_S277_R1_001.fastq.gz
H5_021_SU20_T_TAGCGAGT_AAGGCTAT_S277_R2_001.fastq.gz


title: E12_061_COH69_T

description:
G9_054_SU21_N_TGCCTCTT_TTCTAGCT_S81_R1_001.fastq.gz
G9_054_SU21_N_TGCCTCTT_TTCTAGCT_S81_R2_001.fastq.gz


title: F3_062_COH69_T

description:
H3_020_SU20_T_TTCTGCCT_AAGGAGTA_S195_R1_001.fastq.gz
H3_020_SU20_T_TTCTGCCT_AAGGAGTA_S195_R2_001.fastq.gz


title: E11_062_COH69_T

description:
G9_053_SU21_N_CGCTCAGT_TTATGCGA_S380_R1_001.fastq.gz
G9_053_SU21_N_CGCTCAGT_TTATGCGA_S380_R2_001.fastq.gz


title: D9_061_COH69_T

description:
G9_043_SU9_T_TCGCCTTA_TTCTAGCT_S73_R1_001.fastq.gz
G9_043_SU9_T_TCGCCTTA_TTCTAGCT_S73_R2_001.fastq.gz


title: D8_061_COH69_T

description:
G9_037_SU17_T_CTAGTACG_TTCTAGCT_S74_R1_001.fastq.gz
G9_037_SU17_T_CTAGTACG_TTCTAGCT_S74_R2_001.fastq.gz


title: D7_061_COH69_T

description:
G9_035_SU17_N_TTCTGCCT_GCGTAAGA_S171_R1_001.fastq.gz
G9_035_SU17_N_TTCTGCCT_GCGTAAGA_S171_R2_001.fastq.gz


title: E10_061_COH69_T

description:
G9_051_SU21_N_TCATGAGC_CTAAGCCT_S251_R1_001.fastq.gz
G9_051_SU21_N_TCATGAGC_CTAAGCCT_S251_R2_001.fastq.gz


title: D6_062_COH69_T

description:
G9_031_SU4_T_GCAGCGTA_CGTCTAAT_S305_R1_001.fastq.gz
G9_031_SU4_T_GCAGCGTA_CGTCTAAT_S305_R2_001.fastq.gz


title: D2_062_COH69_T

description:
G9_008_SU20_N_AAGAGGCA_ATAGCCTT_S321_R1_001.fastq.gz
G9_008_SU20_N_AAGAGGCA_ATAGCCTT_S321_R2_001.fastq.gz


title: D4_061_COH69_T

description:
G9_016_SU20_N_ACTGATCG_GCGTAAGA_S190_R1_001.fastq.gz
G9_016_SU20_N_ACTGATCG_GCGTAAGA_S190_R2_001.fastq.gz


title: D3_062_COH69_T

description:
G9_013_SU20_T_TAGCGAGT_TATCCTCT_S61_R1_001.fastq.gz
G9_013_SU20_T_TAGCGAGT_TATCCTCT_S61_R2_001.fastq.gz


title: C7_062_COH69_T

description:
G8_044_SU9_T_AGGCTCCG_ACTGCATA_S160_R1_001.fastq.gz
G8_044_SU9_T_AGGCTCCG_ACTGCATA_S160_R2_001.fastq.gz


title: D12_062_COH69_T

description:
G9_004_SU2_N_CGTACTAG_ATTAGACG_S146_R1_001.fastq.gz
G9_004_SU2_N_CGTACTAG_ATTAGACG_S146_R2_001.fastq.gz


title: D4_062_COH69_T

description:
G9_017_SU20_N_GTAGCTCC_CTAAGCCT_S254_R1_001.fastq.gz
G9_017_SU20_N_GTAGCTCC_CTAAGCCT_S254_R2_001.fastq.gz


title: D6_061_COH69_T

description:
G9_022_SU2_N_CGCTCAGT_GAGCCTTA_S332_R1_001.fastq.gz
G9_022_SU2_N_CGCTCAGT_GAGCCTTA_S332_R2_001.fastq.gz


title: D2_061_COH69_T

description:
G9_007_SU58_T_ATGCGCAG_ACTCTAGG_S258_R1_001.fastq.gz
G9_007_SU58_T_ATGCGCAG_ACTCTAGG_S258_R2_001.fastq.gz


title: C5_062_COH69_T

description:
G8_039_SU9_N_GAGCGCTA_TTATGCGA_S379_R1_001.fastq.gz
G8_039_SU9_N_GAGCGCTA_TTATGCGA_S379_R2_001.fastq.gz


title: C11_062_COH69_T

description:
G8_021_SU20_T_CATGCCTA_AAGGCTAT_S270_R1_001.fastq.gz
G8_021_SU20_T_CATGCCTA_AAGGCTAT_S270_R2_001.fastq.gz


title: C8_062_COH69_T

description:
G8_051_SU21_N_TCCTCTAC_CTAAGCCT_S250_R1_001.fastq.gz
G8_051_SU21_N_TCCTCTAC_CTAAGCCT_S250_R2_001.fastq.gz


title: D12_061_COH69_T

description:
G8_062_COH69_T_TAGCTGCA_CTATTAAG_S239_R1_001.fastq.gz
G8_062_COH69_T_TAGCTGCA_CTATTAAG_S239_R2_001.fastq.gz


title: C12_061_COH69_T

description:
G8_023_SU2_T_GTCTTAGG_TTATGCGA_S381_R1_001.fastq.gz
G8_023_SU2_T_GTCTTAGG_TTATGCGA_S381_R2_001.fastq.gz


title: D11_062_COH69_T

description:
G8_060_SU21_T_TCATGAGC_TTATGCGA_S371_R1_001.fastq.gz
G8_060_SU21_T_TCATGAGC_TTATGCGA_S371_R2_001.fastq.gz


title: C9_061_COH69_T

description:
G8_052_SU21_N_GACGTCGA_GAGCCTTA_S336_R1_001.fastq.gz
G8_052_SU21_N_GACGTCGA_GAGCCTTA_S336_R2_001.fastq.gz


title: D1_061_COH69_T

description:
G8_058_SU21_T_TTCTGCCT_AAGGAGTA_S195_R1_001.fastq.gz
G8_058_SU21_T_TTCTGCCT_AAGGAGTA_S195_R2_001.fastq.gz


title: C10_061_COH69_T

description:
G8_020_SU20_T_GTCTTAGG_GCGTAAGA_S189_R1_001.fastq.gz
G8_020_SU20_T_GTCTTAGG_GCGTAAGA_S189_R2_001.fastq.gz


title: C2_061_COH69_T

description:
G8_035_SU17_N_CTAGTACG_GCGTAAGA_S170_R1_001.fastq.gz
G8_035_SU17_N_CTAGTACG_GCGTAAGA_S170_R2_001.fastq.gz


title: E11_061_COH69_T

description:
G9_052_SU21_N_TCGCCTTA_TCTCTCCG_S337_R1_001.fastq.gz
G9_052_SU21_N_TCGCCTTA_TCTCTCCG_S337_R2_001.fastq.gz


title: C3_061_COH69_T

description:
G8_037_SU17_T_TCGCCTTA_TTCTAGCT_S73_R1_001.fastq.gz
G8_037_SU17_T_TCGCCTTA_TTCTAGCT_S73_R2_001.fastq.gz


title: D10_062_COH69_T

description:
G8_054_SU21_N_CAGCCTCG_TTCTAGCT_S80_R1_001.fastq.gz
G8_054_SU21_N_CAGCCTCG_TTCTAGCT_S80_R2_001.fastq.gz


title: C4_061_COH69_T

description:
G8_038_SU17_T_CCTGAGAT_CGTCTAAT_S300_R1_001.fastq.gz
G8_038_SU17_T_CCTGAGAT_CGTCTAAT_S300_R2_001.fastq.gz


title: B9_062_COH69_T

description:
G8_018_SU20_N_AGGAGTCC_TCTCTCCG_S341_R1_001.fastq.gz
G8_018_SU20_N_AGGAGTCC_TCTCTCCG_S341_R2_001.fastq.gz


title: B8_062_COH69_T

description:
G8_008_SU20_N_CGAGGCTG_ATAGCCTT_S320_R1_001.fastq.gz
G8_008_SU20_N_CGAGGCTG_ATAGCCTT_S320_R2_001.fastq.gz


title: B7_062_COH69_T

description:
G8_003_SU58_T_GCGTAGTA_CTCCTTAC_S63_R1_001.fastq.gz
G8_003_SU58_T_GCGTAGTA_CTCCTTAC_S63_R2_001.fastq.gz


title: B8_061_COH69_T

description:
G8_004_SU2_N_TAAGGCGA_ATTAGACG_S145_R1_001.fastq.gz
G8_004_SU2_N_TAAGGCGA_ATTAGACG_S145_R2_001.fastq.gz


title: B6_061_COH69_T

description:
G7_060_SU21_T_TCCTCTAC_TTATGCGA_S370_R1_001.fastq.gz
G7_060_SU21_T_TCCTCTAC_TTATGCGA_S370_R2_001.fastq.gz


title: B7_061_COH69_T

description:
G7_062_COH69_T_ACTGATCG_CTATTAAG_S238_R1_001.fastq.gz
G7_062_COH69_T_ACTGATCG_CTATTAAG_S238_R2_001.fastq.gz


title: B4_062_COH69_T

description:
G7_054_SU21_N_GTAGAGAG_TTCTAGCT_S79_R1_001.fastq.gz
G7_054_SU21_N_GTAGAGAG_TTCTAGCT_S79_R2_001.fastq.gz


title: B3_061_COH69_T

description:
G7_043_SU9_T_TAGCTGCA_TATCCTCT_S71_R1_001.fastq.gz
G7_043_SU9_T_TAGCTGCA_TATCCTCT_S71_R2_001.fastq.gz


title: B5_061_COH69_T

description:
G7_058_SU21_T_CTAGTACG_AAGGAGTA_S194_R1_001.fastq.gz
G7_058_SU21_T_CTAGTACG_AAGGAGTA_S194_R2_001.fastq.gz


title: B3_062_COH69_T

description:
G7_052_SU21_N_TAGCTGCA_GAGCCTTA_S335_R1_001.fastq.gz
G7_052_SU21_N_TAGCTGCA_GAGCCTTA_S335_R2_001.fastq.gz


title: B2_061_COH69_T

description:
G7_038_SU17_T_TCATGAGC_CGTCTAAT_S299_R1_001.fastq.gz
G7_038_SU17_T_TCATGAGC_CGTCTAAT_S299_R2_001.fastq.gz


title: B11_061_COH69_T

description:
G7_036_SU17_N_TTCTGCCT_CTATTAAG_S219_R1_001.fastq.gz
G7_036_SU17_N_TTCTGCCT_CTATTAAG_S219_R2_001.fastq.gz


title: A5_061_COH69_T

description:
G7_020_SU20_T_CGCTCAGT_GCGTAAGA_S188_R1_001.fastq.gz
G7_020_SU20_T_CGCTCAGT_GCGTAAGA_S188_R2_001.fastq.gz


title: B10_061_COH69_T

description:
G7_035_SU17_N_TCGCCTTA_GCGTAAGA_S169_R1_001.fastq.gz
G7_035_SU17_N_TCGCCTTA_GCGTAAGA_S169_R2_001.fastq.gz


title: A6_062_COH69_T

description:
G7_023_SU2_T_CGCTCAGT_TTATGCGA_S380_R1_001.fastq.gz
G7_023_SU2_T_CGCTCAGT_TTATGCGA_S380_R2_001.fastq.gz


title: A7_061_COH69_T

description:
G7_028_SU4_N_CTGCGCAT_TATCCTCT_S66_R1_001.fastq.gz
G7_028_SU4_N_CTGCGCAT_TATCCTCT_S66_R2_001.fastq.gz


title: A7_062_COH69_T

description:
G7_029_SU4_N_GACGTCGA_CCTAGAGT_S144_R1_001.fastq.gz
G7_029_SU4_N_GACGTCGA_CCTAGAGT_S144_R2_001.fastq.gz


title: A8_062_COH69_T

description:
G7_034_SU17_N_GTAGAGAG_TTCTAGCT_S79_R1_001.fastq.gz
G7_034_SU17_N_GTAGAGAG_TTCTAGCT_S79_R2_001.fastq.gz


title: A5_062_COH69_T

description:
G7_021_SU20_T_AGGAGTCC_AAGGCTAT_S269_R1_001.fastq.gz
G7_021_SU20_T_AGGAGTCC_AAGGCTAT_S269_R2_001.fastq.gz


title: A3_062_COH69_T

description:
G7_015_SU20_T_GCAGCGTA_GTAAGGAG_S113_R1_001.fastq.gz
G7_015_SU20_T_GCAGCGTA_GTAAGGAG_S113_R2_001.fastq.gz


title: G9_054_SU21_N

description:
G6_057_SU21_T_GACGTCGA_GTAAGGAG_S120_R1_001.fastq.gz
G6_057_SU21_T_GACGTCGA_GTAAGGAG_S120_R2_001.fastq.gz

value: Adjacent normal


title: A3_061_COH69_T

description:
G7_008_SU20_N_CTCTCTAC_ATAGCCTT_S319_R1_001.fastq.gz
G7_008_SU20_N_CTCTCTAC_ATAGCCTT_S319_R2_001.fastq.gz


title: A2_061_COH69_T

description:
G6_061_COH69_T_TACTACGC_ACTGCATA_S159_R1_001.fastq.gz
G6_061_COH69_T_TACTACGC_ACTGCATA_S159_R2_001.fastq.gz


title: A4_062_COH69_T

description:
G7_018_SU20_N_GCTCAGGA_TCTCTCCG_S340_R1_001.fastq.gz
G7_018_SU20_N_GCTCAGGA_TCTCTCCG_S340_R2_001.fastq.gz


title: G7_054_SU21_N

description:
G6_051_SU21_N_CAGCCTCG_CTAAGCCT_S248_R1_001.fastq.gz
G6_051_SU21_N_CAGCCTCG_CTAAGCCT_S248_R2_001.fastq.gz


title: G6_054_SU21_N

description:
G6_043_SU9_T_ACTGATCG_TATCCTCT_S70_R1_001.fastq.gz
G6_043_SU9_T_ACTGATCG_TATCCTCT_S70_R2_001.fastq.gz


title: G8_054_SU21_N

description:
G6_054_SU21_N_CATGCCTA_TTCTAGCT_S78_R1_001.fastq.gz
G6_054_SU21_N_CATGCCTA_TTCTAGCT_S78_R2_001.fastq.gz

value: Mature luminal


title: G3_054_SU21_N

description:
G6_039_SU9_N_GCAGCGTA_TTATGCGA_S377_R1_001.fastq.gz
G6_039_SU9_N_GCAGCGTA_TTATGCGA_S377_R2_001.fastq.gz


title: B11_062_COH69_T

description:
G7_037_SU17_T_GACGTCGA_TATCCTCT_S72_R1_001.fastq.gz
G7_037_SU17_T_GACGTCGA_TATCCTCT_S72_R2_001.fastq.gz


title: G12_054_SU21_N

description:
G6_037_SU17_T_TAGCTGCA_TATCCTCT_S71_R1_001.fastq.gz
G6_037_SU17_T_TAGCTGCA_TATCCTCT_S71_R2_001.fastq.gz


title: G1_054_SU21_N

description:
G6_035_SU17_N_GACGTCGA_ACTGCATA_S168_R1_001.fastq.gz
G6_035_SU17_N_GACGTCGA_ACTGCATA_S168_R2_001.fastq.gz


title: G10_054_SU21_N

description:
G6_034_SU17_N_CATGCCTA_TTCTAGCT_S78_R1_001.fastq.gz
G6_034_SU17_N_CATGCCTA_TTCTAGCT_S78_R2_001.fastq.gz


title: A10_061_COH69_T

description:
G6_060_SU21_T_TGCCTCTT_TTATGCGA_S369_R1_001.fastq.gz
G6_060_SU21_T_TGCCTCTT_TTATGCGA_S369_R2_001.fastq.gz


title: F7_054_SU21_N

description:
G6_029_SU4_N_TAGCTGCA_CCTAGAGT_S143_R1_001.fastq.gz
G6_029_SU4_N_TAGCTGCA_CCTAGAGT_S143_R2_001.fastq.gz


title: B2_062_COH69_T

description:
G7_039_SU9_N_CTGCGCAT_TTATGCGA_S378_R1_001.fastq.gz
G7_039_SU9_N_CTGCGCAT_TTATGCGA_S378_R2_001.fastq.gz


title: F6_054_SU21_N

description:
G6_028_SU4_N_GCAGCGTA_TATCCTCT_S65_R1_001.fastq.gz
G6_028_SU4_N_GCAGCGTA_TATCCTCT_S65_R2_001.fastq.gz


title: F8_054_SU21_N

description:
G6_030_SU4_N_TAGCGAGT_CTATTAAG_S229_R1_001.fastq.gz
G6_030_SU4_N_TAGCGAGT_CTATTAAG_S229_R2_001.fastq.gz


title: F5_054_SU21_N

description:
G6_023_SU2_T_GAGCGCTA_TTATGCGA_S379_R1_001.fastq.gz
G6_023_SU2_T_GAGCGCTA_TTATGCGA_S379_R2_001.fastq.gz


title: F2_054_SU21_N

description:
G6_016_SU20_N_CGCTCAGT_GCGTAAGA_S188_R1_001.fastq.gz
G6_016_SU20_N_CGCTCAGT_GCGTAAGA_S188_R2_001.fastq.gz


title: F11_054_SU21_N

description:
G6_015_SU20_T_AGGCTCCG_GTAAGGAG_S112_R1_001.fastq.gz
G6_015_SU20_T_AGGCTCCG_GTAAGGAG_S112_R2_001.fastq.gz


title: F3_054_SU21_N

description:
G6_018_SU20_N_TTCTGCCT_TCTCTCCG_S339_R1_001.fastq.gz
G6_018_SU20_N_TTCTGCCT_TCTCTCCG_S339_R2_001.fastq.gz


title: F4_054_SU21_N

description:
G6_022_SU2_N_GAGCGCTA_GAGCCTTA_S331_R1_001.fastq.gz
G6_022_SU2_N_GAGCGCTA_GAGCCTTA_S331_R2_001.fastq.gz


title: F10_054_SU21_N

description:
G6_008_SU20_N_TAGGCATG_ATAGCCTT_S318_R1_001.fastq.gz
G6_008_SU20_N_TAGGCATG_ATAGCCTT_S318_R2_001.fastq.gz


title: E6_054_SU21_N

description:
G5_061_COH69_T_GTAGCTCC_ACTGCATA_S158_R1_001.fastq.gz
G5_061_COH69_T_GTAGCTCC_ACTGCATA_S158_R2_001.fastq.gz


title: G5_054_SU21_N

description:
G6_041_SU9_N_CGCTCAGT_ACTGCATA_S164_R1_001.fastq.gz
G6_041_SU9_N_CGCTCAGT_ACTGCATA_S164_R2_001.fastq.gz


title: E7_054_SU21_N

description:
G6_003_SU58_T_ACTCGCTA_CTCCTTAC_S61_R1_001.fastq.gz
G6_003_SU58_T_ACTCGCTA_CTCCTTAC_S61_R2_001.fastq.gz


title: E4_054_SU21_N

description:
G5_058_SU21_T_GACGTCGA_GCGTAAGA_S192_R1_001.fastq.gz
G5_058_SU21_T_GACGTCGA_GCGTAAGA_S192_R2_001.fastq.gz


title: E11_054_SU21_N

description:
G5_043_SU9_T_GTCTTAGG_TATCCTCT_S69_R1_001.fastq.gz
G5_043_SU9_T_GTCTTAGG_TATCCTCT_S69_R2_001.fastq.gz


title: E8_054_SU21_N

description:
G6_004_SU2_N_TGCAGCTA_AGGCTTAG_S143_R1_001.fastq.gz
G6_004_SU2_N_TGCAGCTA_AGGCTTAG_S143_R2_001.fastq.gz


title: E2_054_SU21_N

description:
G5_054_SU21_N_AGGAGTCC_TTCTAGCT_S77_R1_001.fastq.gz
G5_054_SU21_N_AGGAGTCC_TTCTAGCT_S77_R2_001.fastq.gz


title: E5_054_SU21_N

description:
G5_060_SU21_T_CAGCCTCG_TTATGCGA_S368_R1_001.fastq.gz
G5_060_SU21_T_CAGCCTCG_TTATGCGA_S368_R2_001.fastq.gz


title: E12_054_SU21_N

description:
G5_051_SU21_N_GTAGAGAG_CTAAGCCT_S247_R1_001.fastq.gz
G5_051_SU21_N_GTAGAGAG_CTAAGCCT_S247_R2_001.fastq.gz


title: E1_054_SU21_N

description:
G5_041_SU9_N_GAGCGCTA_ACTGCATA_S163_R1_001.fastq.gz
G5_041_SU9_N_GAGCGCTA_ACTGCATA_S163_R2_001.fastq.gz


title: E3_054_SU21_N

description:
G5_057_SU21_T_TAGCTGCA_GTAAGGAG_S119_R1_001.fastq.gz
G5_057_SU21_T_TAGCTGCA_GTAAGGAG_S119_R2_001.fastq.gz


title: E10_054_SU21_N

description:
G5_039_SU9_N_AGGCTCCG_TTATGCGA_S376_R1_001.fastq.gz
G5_039_SU9_N_AGGCTCCG_TTATGCGA_S376_R2_001.fastq.gz


title: G2_054_SU21_N

description:
G6_038_SU17_T_TCCTCTAC_CGTCTAAT_S298_R1_001.fastq.gz
G6_038_SU17_T_TCCTCTAC_CGTCTAAT_S298_R2_001.fastq.gz


title: F9_054_SU21_N

description:
G6_031_SU4_T_GTAGCTCC_CGTCTAAT_S302_R1_001.fastq.gz
G6_031_SU4_T_GTAGCTCC_CGTCTAAT_S302_R2_001.fastq.gz


title: D9_054_SU21_N

description:
G5_038_SU17_T_TGCCTCTT_CGTCTAAT_S297_R1_001.fastq.gz
G5_038_SU17_T_TGCCTCTT_CGTCTAAT_S297_R2_001.fastq.gz


title: D8_054_SU21_N

description:
G5_037_SU17_T_ACTGATCG_TATCCTCT_S70_R1_001.fastq.gz
G5_037_SU17_T_ACTGATCG_TATCCTCT_S70_R2_001.fastq.gz


title: E9_054_SU21_N

description:
G6_007_SU58_T_CGGAGCCT_ACTCTAGG_S256_R1_001.fastq.gz
G6_007_SU58_T_CGGAGCCT_ACTCTAGG_S256_R2_001.fastq.gz


title: D6_054_SU21_N

description:
G5_031_SU4_T_TAGCGAGT_CGTCTAAT_S301_R1_001.fastq.gz
G5_031_SU4_T_TAGCGAGT_CGTCTAAT_S301_R2_001.fastq.gz


title: D7_054_SU21_N

description:
G5_035_SU17_N_TAGCTGCA_ACTGCATA_S167_R1_001.fastq.gz
G5_035_SU17_N_TAGCTGCA_ACTGCATA_S167_R2_001.fastq.gz


title: D3_054_SU21_N

description:
G5_023_SU2_T_CTGCGCAT_TTATGCGA_S378_R1_001.fastq.gz
G5_023_SU2_T_CTGCGCAT_TTATGCGA_S378_R2_001.fastq.gz


title: D2_054_SU21_N

description:
G5_022_SU2_N_CTGCGCAT_GAGCCTTA_S330_R1_001.fastq.gz
G5_022_SU2_N_CTGCGCAT_GAGCCTTA_S330_R2_001.fastq.gz


title: D4_054_SU21_N

description:
G5_028_SU4_N_AGGCTCCG_TATCCTCT_S64_R1_001.fastq.gz
G5_028_SU4_N_AGGCTCCG_TATCCTCT_S64_R2_001.fastq.gz


title: D11_054_SU21_N

description:
G5_016_SU20_N_GAGCGCTA_GCGTAAGA_S187_R1_001.fastq.gz
G5_016_SU20_N_GAGCGCTA_GCGTAAGA_S187_R2_001.fastq.gz


title: D5_054_SU21_N

description:
G5_030_SU4_N_CCTGAGAT_CTATTAAG_S228_R1_001.fastq.gz
G5_030_SU4_N_CCTGAGAT_CTATTAAG_S228_R2_001.fastq.gz


title: D12_054_SU21_N

description:
G5_018_SU20_N_CTAGTACG_TCTCTCCG_S338_R1_001.fastq.gz
G5_018_SU20_N_CTAGTACG_TCTCTCCG_S338_R2_001.fastq.gz


title: D1_054_SU21_N

description:
G5_015_SU20_T_TACTACGC_GTAAGGAG_S111_R1_001.fastq.gz
G5_015_SU20_T_TACTACGC_GTAAGGAG_S111_R2_001.fastq.gz


title: C8_054_SU21_N

description:
G5_004_SU2_N_CGATCAGT_AGGCTTAG_S142_R1_001.fastq.gz
G5_004_SU2_N_CGATCAGT_AGGCTTAG_S142_R2_001.fastq.gz


title: C9_054_SU21_N

description:
G5_007_SU58_T_GCGTAGTA_ACTCTAGG_S255_R1_001.fastq.gz
G5_007_SU58_T_GCGTAGTA_ACTCTAGG_S255_R2_001.fastq.gz


title: C7_054_SU21_N

description:
G4_061_COH69_T_TAGCGAGT_ACTGCATA_S157_R1_001.fastq.gz
G4_061_COH69_T_TAGCGAGT_ACTGCATA_S157_R2_001.fastq.gz


title: C6_054_SU21_N

description:
G4_060_SU21_T_GTAGAGAG_TTATGCGA_S367_R1_001.fastq.gz
G4_060_SU21_T_GTAGAGAG_TTATGCGA_S367_R2_001.fastq.gz


title: C3_054_SU21_N

description:
G4_052_SU21_N_GTCTTAGG_GAGCCTTA_S333_R1_001.fastq.gz
G4_052_SU21_N_GTCTTAGG_GAGCCTTA_S333_R2_001.fastq.gz


title: C4_054_SU21_N

description:
G4_057_SU21_T_ACTGATCG_GTAAGGAG_S118_R1_001.fastq.gz
G4_057_SU21_T_ACTGATCG_GTAAGGAG_S118_R2_001.fastq.gz


title: C5_054_SU21_N

description:
G4_058_SU21_T_TAGCTGCA_GCGTAAGA_S191_R1_001.fastq.gz
G4_058_SU21_T_TAGCTGCA_GCGTAAGA_S191_R2_001.fastq.gz


title: C12_054_SU21_N

description:
G4_044_SU9_T_CCTGAGAT_ACTGCATA_S156_R1_001.fastq.gz
G4_044_SU9_T_CCTGAGAT_ACTGCATA_S156_R2_001.fastq.gz


title: C11_054_SU21_N

description:
G4_043_SU9_T_CGCTCAGT_TATCCTCT_S68_R1_001.fastq.gz
G4_043_SU9_T_CGCTCAGT_TATCCTCT_S68_R2_001.fastq.gz


title: C1_054_SU21_N

description:
G4_042_SU9_T_GCTCAGGA_CTAAGCCT_S244_R1_001.fastq.gz
G4_042_SU9_T_GCTCAGGA_CTAAGCCT_S244_R2_001.fastq.gz


title: B9_054_SU21_N

description:
G4_038_SU17_T_CAGCCTCG_CGTCTAAT_S296_R1_001.fastq.gz
G4_038_SU17_T_CAGCCTCG_CGTCTAAT_S296_R2_001.fastq.gz


title: B6_054_SU21_N

description:
G4_031_SU4_T_CCTGAGAT_CGTCTAAT_S300_R1_001.fastq.gz
G4_031_SU4_T_CCTGAGAT_CGTCTAAT_S300_R2_001.fastq.gz


title: B7_054_SU21_N

description:
G4_035_SU17_N_ACTGATCG_ACTGCATA_S166_R1_001.fastq.gz
G4_035_SU17_N_ACTGATCG_ACTGCATA_S166_R2_001.fastq.gz


title: B8_054_SU21_N

description:
G4_036_SU17_N_CTAGTACG_CTATTAAG_S218_R1_001.fastq.gz
G4_036_SU17_N_CTAGTACG_CTATTAAG_S218_R2_001.fastq.gz


title: C10_054_SU21_N

description:
G4_041_SU9_N_CTGCGCAT_ACTGCATA_S162_R1_001.fastq.gz
G4_041_SU9_N_CTGCGCAT_ACTGCATA_S162_R2_001.fastq.gz


title: B5_054_SU21_N

description:
G4_029_SU4_N_GTCTTAGG_CCTAGAGT_S141_R1_001.fastq.gz
G4_029_SU4_N_GTCTTAGG_CCTAGAGT_S141_R2_001.fastq.gz


title: B4_054_SU21_N

description:
G4_021_SU20_T_CTAGTACG_AAGGCTAT_S266_R1_001.fastq.gz
G4_021_SU20_T_CTAGTACG_AAGGCTAT_S266_R2_001.fastq.gz


title: B3_054_SU21_N

description:
G4_018_SU20_N_TCGCCTTA_TCTCTCCG_S337_R1_001.fastq.gz
G4_018_SU20_N_TCGCCTTA_TCTCTCCG_S337_R2_001.fastq.gz


title: B2_054_SU21_N

description:
G4_013_SU20_T_TCATGAGC_TATCCTCT_S59_R1_001.fastq.gz
G4_013_SU20_T_TCATGAGC_TATCCTCT_S59_R2_001.fastq.gz


title: B12_054_SU21_N

description:
G4_009_SU20_N_GCGTAGTA_TAAGGCTC_S351_R1_001.fastq.gz
G4_009_SU20_N_GCGTAGTA_TAAGGCTC_S351_R2_001.fastq.gz


title: D10_054_SU21_N

description:
G5_013_SU20_T_CCTGAGAT_TATCCTCT_S60_R1_001.fastq.gz
G5_013_SU20_T_CCTGAGAT_TATCCTCT_S60_R2_001.fastq.gz


title: B10_054_SU21_N

description:
G3_054_SU21_N_TTCTGCCT_TTCTAGCT_S75_R1_001.fastq.gz
G3_054_SU21_N_TTCTGCCT_TTCTAGCT_S75_R2_001.fastq.gz


title: A9_054_SU21_N

description:
G3_053_SU21_N_AGGCTCCG_TTATGCGA_S376_R1_001.fastq.gz
G3_053_SU21_N_AGGCTCCG_TTATGCGA_S376_R2_001.fastq.gz


title: B1_054_SU21_N

description:
G3_057_SU21_T_GTCTTAGG_GTAAGGAG_S117_R1_001.fastq.gz
G3_057_SU21_T_GTCTTAGG_GTAAGGAG_S117_R2_001.fastq.gz


title: A8_054_SU21_N

description:
G3_051_SU21_N_AGGAGTCC_CTAAGCCT_S245_R1_001.fastq.gz
G3_051_SU21_N_AGGAGTCC_CTAAGCCT_S245_R2_001.fastq.gz


title: C2_054_SU21_N

description:
G4_051_SU21_N_CATGCCTA_CTAAGCCT_S246_R1_001.fastq.gz
G4_051_SU21_N_CATGCCTA_CTAAGCCT_S246_R2_001.fastq.gz


title: A5_054_SU21_N

description:
G3_038_SU17_T_GTAGAGAG_CGTCTAAT_S295_R1_001.fastq.gz
G3_038_SU17_T_GTAGAGAG_CGTCTAAT_S295_R2_001.fastq.gz


title: A6_054_SU21_N

description:
G3_041_SU9_N_GCAGCGTA_ACTGCATA_S161_R1_001.fastq.gz
G3_041_SU9_N_GCAGCGTA_ACTGCATA_S161_R2_001.fastq.gz


title: A7_054_SU21_N

description:
G3_043_SU9_T_GAGCGCTA_TATCCTCT_S67_R1_001.fastq.gz
G3_043_SU9_T_GAGCGCTA_TATCCTCT_S67_R2_001.fastq.gz


title: A3_054_SU21_N

description:
G3_036_SU17_N_TCGCCTTA_CTATTAAG_S217_R1_001.fastq.gz
G3_036_SU17_N_TCGCCTTA_CTATTAAG_S217_R2_001.fastq.gz


title: A4_054_SU21_N

description:
G3_037_SU17_T_CGCTCAGT_TATCCTCT_S68_R1_001.fastq.gz
G3_037_SU17_T_CGCTCAGT_TATCCTCT_S68_R2_001.fastq.gz


title: A11_054_SU21_N

description:
G3_030_SU4_N_TCCTCTAC_CTATTAAG_S226_R1_001.fastq.gz
G3_030_SU4_N_TCCTCTAC_CTATTAAG_S226_R2_001.fastq.gz


title: G9_060_SU21_T

description:
G3_022_SU2_N_GCAGCGTA_GAGCCTTA_S329_R1_001.fastq.gz
G3_022_SU2_N_GCAGCGTA_GAGCCTTA_S329_R2_001.fastq.gz


title: A1_054_SU21_N

description:
G3_029_SU4_N_CGCTCAGT_CCTAGAGT_S140_R1_001.fastq.gz
G3_029_SU4_N_CGCTCAGT_CCTAGAGT_S140_R2_001.fastq.gz


title: G7_060_SU21_T

description:
G3_019_SU20_T_TCGCCTTA_GTAAGGAG_S97_R1_001.fastq.gz
G3_019_SU20_T_TCGCCTTA_GTAAGGAG_S97_R2_001.fastq.gz


title: G6_060_SU21_T

description:
G3_018_SU20_N_GACGTCGA_GAGCCTTA_S336_R1_001.fastq.gz
G3_018_SU20_N_GACGTCGA_GAGCCTTA_S336_R2_001.fastq.gz


title: G5_060_SU21_T

description:
G3_017_SU20_N_TCCTCTAC_CTAAGCCT_S250_R1_001.fastq.gz
G3_017_SU20_N_TCCTCTAC_CTAAGCCT_S250_R2_001.fastq.gz


title: G8_060_SU21_T

description:
G3_021_SU20_T_TCGCCTTA_AAGGCTAT_S265_R1_001.fastq.gz
G3_021_SU20_T_TCGCCTTA_AAGGCTAT_S265_R2_001.fastq.gz


title: A10_054_SU21_N

description:
G3_023_SU2_T_GCAGCGTA_TTATGCGA_S377_R1_001.fastq.gz
G3_023_SU2_T_GCAGCGTA_TTATGCGA_S377_R2_001.fastq.gz


title: G12_060_SU21_T

description:
G3_009_SU20_N_GGAGCTAC_TAAGGCTC_S350_R1_001.fastq.gz
G3_009_SU20_N_GGAGCTAC_TAAGGCTC_S350_R2_001.fastq.gz


title: G11_060_SU21_T

description:
G3_008_SU20_N_GGACTCCT_ATAGCCTT_S317_R1_001.fastq.gz
G3_008_SU20_N_GGACTCCT_ATAGCCTT_S317_R2_001.fastq.gz


title: G1_060_SU21_T

description:
G2_062_COH69_T_CTGCGCAT_CTATTAAG_S234_R1_001.fastq.gz
G2_062_COH69_T_CTGCGCAT_CTATTAAG_S234_R2_001.fastq.gz


title: G10_060_SU21_T

description:
G2_060_SU21_T_AGGAGTCC_TTATGCGA_S365_R1_001.fastq.gz
G2_060_SU21_T_AGGAGTCC_TTATGCGA_S365_R2_001.fastq.gz


title: F5_060_SU21_T

description:
G2_057_SU21_T_CGCTCAGT_GTAAGGAG_S116_R1_001.fastq.gz
G2_057_SU21_T_CGCTCAGT_GTAAGGAG_S116_R2_001.fastq.gz


title: G2_060_SU21_T

description:
G3_013_SU20_T_TCCTCTAC_TATCCTCT_S58_R1_001.fastq.gz
G3_013_SU20_T_TCCTCTAC_TATCCTCT_S58_R2_001.fastq.gz


title: A2_054_SU21_N

description:
G3_035_SU17_N_GTCTTAGG_ACTGCATA_S165_R1_001.fastq.gz
G3_035_SU17_N_GTCTTAGG_ACTGCATA_S165_R2_001.fastq.gz


title: F3_060_SU21_T

description:
G2_054_SU21_N_CTAGTACG_TTCTAGCT_S74_R1_001.fastq.gz
G2_054_SU21_N_CTAGTACG_TTCTAGCT_S74_R2_001.fastq.gz


title: F10_060_SU21_T

description:
G2_039_SU9_N_GTAGCTCC_TTATGCGA_S374_R1_001.fastq.gz
G2_039_SU9_N_GTAGCTCC_TTATGCGA_S374_R2_001.fastq.gz


title: F11_060_SU21_T

description:
G2_041_SU9_N_AGGCTCCG_ACTGCATA_S160_R1_001.fastq.gz
G2_041_SU9_N_AGGCTCCG_ACTGCATA_S160_R2_001.fastq.gz


title: F1_060_SU21_T

description:
G2_040_SU9_N_TCGCCTTA_TTCTAGCT_S73_R1_001.fastq.gz
G2_040_SU9_N_TCGCCTTA_TTCTAGCT_S73_R2_001.fastq.gz


title: F12_060_SU21_T

description:
G2_043_SU9_T_CTGCGCAT_TATCCTCT_S66_R1_001.fastq.gz
G2_043_SU9_T_CTGCGCAT_TATCCTCT_S66_R2_001.fastq.gz


title: E9_060_SU21_T

description:
G2_038_SU17_T_CATGCCTA_CGTCTAAT_S294_R1_001.fastq.gz
G2_038_SU17_T_CATGCCTA_CGTCTAAT_S294_R2_001.fastq.gz


title: A12_054_SU21_N

description:
G3_034_SU17_N_TTCTGCCT_TTCTAGCT_S75_R1_001.fastq.gz
G3_034_SU17_N_TTCTGCCT_TTCTAGCT_S75_R2_001.fastq.gz


title: E6_060_SU21_T

description:
G2_035_SU17_N_CGCTCAGT_ACTGCATA_S164_R1_001.fastq.gz
G2_035_SU17_N_CGCTCAGT_ACTGCATA_S164_R2_001.fastq.gz


title: E8_060_SU21_T

description:
G2_037_SU17_T_GAGCGCTA_TATCCTCT_S67_R1_001.fastq.gz
G2_037_SU17_T_GAGCGCTA_TATCCTCT_S67_R2_001.fastq.gz


title: E5_060_SU21_T

description:
G2_031_SU4_T_TCCTCTAC_CGTCTAAT_S298_R1_001.fastq.gz
G2_031_SU4_T_TCCTCTAC_CGTCTAAT_S298_R2_001.fastq.gz


title: E4_060_SU21_T

description:
G2_030_SU4_N_TGCCTCTT_CTATTAAG_S225_R1_001.fastq.gz
G2_030_SU4_N_TGCCTCTT_CTATTAAG_S225_R2_001.fastq.gz


title: E3_060_SU21_T

description:
G2_029_SU4_N_GAGCGCTA_CCTAGAGT_S139_R1_001.fastq.gz
G2_029_SU4_N_GAGCGCTA_CCTAGAGT_S139_R2_001.fastq.gz


title: E11_060_SU21_T

description:
G2_021_SU20_T_GACGTCGA_CTAAGCCT_S264_R1_001.fastq.gz
G2_021_SU20_T_GACGTCGA_CTAAGCCT_S264_R2_001.fastq.gz


title: E12_060_SU21_T

description:
G2_023_SU2_T_AGGCTCCG_TTATGCGA_S376_R1_001.fastq.gz
G2_023_SU2_T_AGGCTCCG_TTATGCGA_S376_R2_001.fastq.gz


title: D8_060_SU21_T

description:
G2_018_SU20_N_TAGCTGCA_GAGCCTTA_S335_R1_001.fastq.gz
G2_018_SU20_N_TAGCTGCA_GAGCCTTA_S335_R2_001.fastq.gz


title: D4_060_SU21_T

description:
G2_008_SU20_N_TCCTGAGC_ATAGCCTT_S316_R1_001.fastq.gz
G2_008_SU20_N_TCCTGAGC_ATAGCCTT_S316_R2_001.fastq.gz


title: D5_060_SU21_T

description:
G2_013_SU20_T_TGCCTCTT_TATCCTCT_S57_R1_001.fastq.gz
G2_013_SU20_T_TGCCTCTT_TATCCTCT_S57_R2_001.fastq.gz


title: E1_060_SU21_T

description:
G2_020_SU20_T_TACTACGC_GCGTAAGA_S183_R1_001.fastq.gz
G2_020_SU20_T_TACTACGC_GCGTAAGA_S183_R2_001.fastq.gz


title: D6_060_SU21_T

description:
G2_016_SU20_N_AGGCTCCG_GCGTAAGA_S184_R1_001.fastq.gz
G2_016_SU20_N_AGGCTCCG_GCGTAAGA_S184_R2_001.fastq.gz


title: G4_060_SU21_T

description:
G3_015_SU20_T_GTAGCTCC_GTAAGGAG_S110_R1_001.fastq.gz
G3_015_SU20_T_GTAGCTCC_GTAAGGAG_S110_R2_001.fastq.gz


title: D3_060_SU21_T

description:
G2_007_SU58_T_GGAGCTAC_ACTCTAGG_S254_R1_001.fastq.gz
G2_007_SU58_T_GGAGCTAC_ACTCTAGG_S254_R2_001.fastq.gz


title: D2_060_SU21_T

description:
G12_062_COH69_T_TTCTGCCT_CTAAGCCT_S243_R1_001.fastq.gz
G12_062_COH69_T_TTCTGCCT_CTAAGCCT_S243_R2_001.fastq.gz


title: D12_060_SU21_T

description:
G12_060_SU21_T_TACTACGC_TTATGCGA_S375_R1_001.fastq.gz
G12_060_SU21_T_TACTACGC_TTATGCGA_S375_R2_001.fastq.gz


title: D1_060_SU21_T

description:
G12_054_SU21_N_TCATGAGC_TTCTAGCT_S83_R1_001.fastq.gz
G12_054_SU21_N_TCATGAGC_TTCTAGCT_S83_R2_001.fastq.gz


title: D10_060_SU21_T

description:
G12_052_SU21_N_GCTCAGGA_TCTCTCCG_S340_R1_001.fastq.gz
G12_052_SU21_N_GCTCAGGA_TCTCTCCG_S340_R2_001.fastq.gz


title: C8_060_SU21_T

description:
G12_044_SU9_T_CGCTCAGT_ACTGCATA_S164_R1_001.fastq.gz
G12_044_SU9_T_CGCTCAGT_ACTGCATA_S164_R2_001.fastq.gz


title: C9_060_SU21_T

description:
G12_051_SU21_N_GTAGCTCC_CTAAGCCT_S254_R1_001.fastq.gz
G12_051_SU21_N_GTAGCTCC_CTAAGCCT_S254_R2_001.fastq.gz


title: C7_060_SU21_T

description:
G12_043_SU9_T_GCTCAGGA_TTCTAGCT_S76_R1_001.fastq.gz
G12_043_SU9_T_GCTCAGGA_TTCTAGCT_S76_R2_001.fastq.gz


title: E2_060_SU21_T

description:
G2_028_SU4_N_TAGCGAGT_TATCCTCT_S61_R1_001.fastq.gz
G2_028_SU4_N_TAGCGAGT_TATCCTCT_S61_R2_001.fastq.gz


title: C4_060_SU21_T

description:
G12_038_SU17_T_AGGCTCCG_CGTCTAAT_S304_R1_001.fastq.gz
G12_038_SU17_T_AGGCTCCG_CGTCTAAT_S304_R2_001.fastq.gz


title: C12_060_SU21_T

description:
G12_034_SU17_N_CCTGAGAT_TTCTAGCT_S84_R1_001.fastq.gz
G12_034_SU17_N_CCTGAGAT_TTCTAGCT_S84_R2_001.fastq.gz


title: C1_060_SU21_T

description:
G12_018_SU20_N_TGCCTCTT_TCTCTCCG_S345_R1_001.fastq.gz
G12_018_SU20_N_TGCCTCTT_TCTCTCCG_S345_R2_001.fastq.gz


title: C11_060_SU21_T

description:
G12_031_SU4_T_CGCTCAGT_CGTCTAAT_S308_R1_001.fastq.gz
G12_031_SU4_T_CGCTCAGT_CGTCTAAT_S308_R2_001.fastq.gz


title: B5_060_SU21_T

description:
G12_017_SU20_N_GCAGCGTA_CTAAGCCT_S257_R1_001.fastq.gz
G12_017_SU20_N_GCAGCGTA_CTAAGCCT_S257_R2_001.fastq.gz


title: F2_060_SU21_T

description:
G2_052_SU21_N_GAGCGCTA_GAGCCTTA_S331_R1_001.fastq.gz
G2_052_SU21_N_GAGCGCTA_GAGCCTTA_S331_R2_001.fastq.gz


title: E10_060_SU21_T

description:
G2_019_SU20_T_GACGTCGA_TTCTAGCT_S96_R1_001.fastq.gz
G2_019_SU20_T_GACGTCGA_TTCTAGCT_S96_R2_001.fastq.gz


title: B2_060_SU21_T

description:
G12_004_SU2_N_GGACTCCT_ATTAGACG_S149_R1_001.fastq.gz
G12_004_SU2_N_GGACTCCT_ATTAGACG_S149_R2_001.fastq.gz


title: B11_060_SU21_T

description:
G12_003_SU58_T_ATGCGCAG_CTCCTTAC_S66_R1_001.fastq.gz
G12_003_SU58_T_ATGCGCAG_CTCCTTAC_S66_R2_001.fastq.gz


title: B1_060_SU21_T

description:
G11_062_COH69_T_CTAGTACG_CTAAGCCT_S242_R1_001.fastq.gz
G11_062_COH69_T_CTAGTACG_CTAAGCCT_S242_R2_001.fastq.gz


title: B3_060_SU21_T

description:
G12_014_SU20_T_GACGTCGA_TATCCTCT_S72_R1_001.fastq.gz
G12_014_SU20_T_GACGTCGA_TATCCTCT_S72_R2_001.fastq.gz


title: C5_060_SU21_T

description:
G12_040_SU9_N_TCATGAGC_TTCTAGCT_S83_R1_001.fastq.gz
G12_040_SU9_N_TCATGAGC_TTCTAGCT_S83_R2_001.fastq.gz


title: A9_060_SU21_T

description:
G11_053_SU21_N_ACTGATCG_TTATGCGA_S382_R1_001.fastq.gz
G11_053_SU21_N_ACTGATCG_TTATGCGA_S382_R2_001.fastq.gz


title: C3_060_SU21_T

description:
G12_036_SU17_N_GTAGAGAG_CTATTAAG_S223_R1_001.fastq.gz
G12_036_SU17_N_GTAGAGAG_CTATTAAG_S223_R2_001.fastq.gz


title: A7_060_SU21_T

description:
G11_051_SU21_N_TAGCGAGT_CTAAGCCT_S253_R1_001.fastq.gz
G11_051_SU21_N_TAGCGAGT_CTAAGCCT_S253_R2_001.fastq.gz


title: A6_060_SU21_T

description:
G11_044_SU9_T_GAGCGCTA_ACTGCATA_S163_R1_001.fastq.gz
G11_044_SU9_T_GAGCGCTA_ACTGCATA_S163_R2_001.fastq.gz


title: A5_060_SU21_T

description:
G11_041_SU9_N_TCGCCTTA_GCGTAAGA_S169_R1_001.fastq.gz
G11_041_SU9_N_TCGCCTTA_GCGTAAGA_S169_R2_001.fastq.gz


title: A3_060_SU21_T

description:
G11_037_SU17_T_GCTCAGGA_TTCTAGCT_S76_R1_001.fastq.gz
G11_037_SU17_T_GCTCAGGA_TTCTAGCT_S76_R2_001.fastq.gz


title: A2_060_SU21_T

description:
G11_036_SU17_N_CATGCCTA_CTATTAAG_S222_R1_001.fastq.gz
G11_036_SU17_N_CATGCCTA_CTATTAAG_S222_R2_001.fastq.gz


title: B4_060_SU21_T

description:
G12_016_SU20_N_TCGCCTTA_AAGGAGTA_S193_R1_001.fastq.gz
G12_016_SU20_N_TCGCCTTA_AAGGAGTA_S193_R2_001.fastq.gz


title: A11_060_SU21_T

description:
G11_034_SU17_N_TCATGAGC_TTCTAGCT_S83_R1_001.fastq.gz
G11_034_SU17_N_TCATGAGC_TTCTAGCT_S83_R2_001.fastq.gz


title: A12_060_SU21_T

description:
G11_035_SU17_N_AGGAGTCC_GCGTAAGA_S173_R1_001.fastq.gz
G11_035_SU17_N_AGGAGTCC_GCGTAAGA_S173_R2_001.fastq.gz


title: B10_060_SU21_T

description:
G11_060_SU21_T_GTAGCTCC_TTATGCGA_S374_R1_001.fastq.gz
G11_060_SU21_T_GTAGCTCC_TTATGCGA_S374_R2_001.fastq.gz


title: G9_058_SU21_T

description:
G11_030_SU4_N_CTGCGCAT_CTATTAAG_S234_R1_001.fastq.gz
G11_030_SU4_N_CTGCGCAT_CTATTAAG_S234_R2_001.fastq.gz


title: G8_058_SU21_T

description:
G11_029_SU4_N_GCTCAGGA_ACTGCATA_S148_R1_001.fastq.gz
G11_029_SU4_N_GCTCAGGA_ACTGCATA_S148_R2_001.fastq.gz


title: G7_058_SU21_T

description:
G11_028_SU4_N_CGCTCAGT_TATCCTCT_S68_R1_001.fastq.gz
G11_028_SU4_N_CGCTCAGT_TATCCTCT_S68_R2_001.fastq.gz


title: G4_058_SU21_T

description:
G11_018_SU20_N_CAGCCTCG_TCTCTCCG_S344_R1_001.fastq.gz
G11_018_SU20_N_CAGCCTCG_TCTCTCCG_S344_R2_001.fastq.gz


title: F5_058_SU21_T

description:
G11_007_SU58_T_ACTGAGCG_ACTCTAGG_S260_R1_001.fastq.gz
G11_007_SU58_T_ACTGAGCG_ACTCTAGG_S260_R2_001.fastq.gz