title: JB156_RNA


title: JB257_RNA

status: Public on Jan 05 2021

type: SRA

city: Buffalo

first: Tao

last: Liu

state: NY

address: Elm and Carlton St

department: Biostatistics and Bioinformatics

country: USA

institute: Roswell Park Comprehensive Cancer Institute

library_source: transcriptomic

data_processing:
RNA-seq  reads aligned to hg19 genome with bowtie2, using paired-end options (-1 and -2)
All aligned files were converted into BAM files with samtools
RNA-seq count table made with HT-seq, using gencode v19 gene annotations and aligned BAM files
Genome_build: hg19

molecule: total RNA

organism: Homo sapiens

source_name: CD4+ T cell

growth_protocol: Human CD4+ T cells were purified from whole blood by positive selection using the StemSep™ Human CD4+ T Cell Enrichment Kit.

extract_protocol:
Total RNA was extracted using TRIzol™ reagent and was further purified using RNeasy MiniElute Cleanup kit, including a DNase digest.
cDNA libraries were prepared for each sample using the Illumina TruSeq RNA Sample Preparation Kit following the manufacture’s recommended procedures. Libraries were sequenced using 100 base pair (bp) paired-end reads on the Illumina HiSeq 2500 platform.  Then DNA-sequencing was conducted using the Illumina HiSeq 2500  platform. The sequencing libraries were generated on the streptavidin beads using the Nextera DNA Library Prep Kit.

tag: tissue

value: Blood

tag: cell type

value: White blood cell

tag: cell line

value: CD4+ T cell

tag: disease state

value: Clinical Remission on medication


title: JB133_RNA

value: Healthy Controls


title: JB134_RNA


title: JB132_RNA


title: JB131_RNA


title: JB120_RNA


title: JB421_CTCF

library_source: genomic

data_processing:
CTCF ChIP-seq reads aligned to hg19 genome with bowtie2, using single-end options (-U)
All aligned files were converted into BAM files with samtools
CTCF ChIP-seq peaks were called using MACS2, using aligned BAM files, aligned control BAM files
Genome_build: hg19

molecule: genomic DNA

extract_protocol:
Purified CD4+ T cells were fixed in 1% formaldehyde  in PBS for 10 min at room temperature, followed by 5 min blocking in 125 mM glycine
The ChIP assay was carried out using a kit from Diagenode following the manufacturer's protocols. Then DNA-sequencing was conducted using the Illumina HiSeq 2500  platform. The sequencing libraries were generated on the streptavidin beads using the Nextera DNA Library Prep Kit.

value: Active Juvenile Idiopathic Arthritis on Treatment


title: JB430_CTCF


title: JB113_RNA


title: JB430-Input_2_CTCF


title: JB430-Input_1_CTCF


title: JB420_CTCF


title: JB420-Input_CTCF


title: JB419_CTCF


title: JB111_RNA


title: JB115_RNA


title: JB414_CTCF


title: JB116_RNA


title: JB419-Input_CTCF


title: JB417-Input_CTCF


title: JB421-Input_CTCF


title: JB417_CTCF


title: JB407_2_CTCF


title: JB407_1_CTCF


title: JB407-Input_CTCF


title: JB406-Input_CTCF


title: JB398_CTCF


title: JB406_CTCF


title: JB112_RNA


title: JB397_CTCF


title: JB398-Input_CTCF


title: JB397-Input_CTCF


title: IPF_rep3

city: Cincinnati

first: John

middle: M.

last: Snowball

state: OH

address: 3333 Burnet Ave

department: Pulmonary Research

institute: Cincinnati Childrens Hospital

description:
IPF3
raw_counts_IPF.txt

data_processing:
FASTQ files were aligned using Bowtie2 to mouse reference genome mm10.
RNAseq Normalized gene expressions were generated using Cufflinks.
RNAseq Gene counts were obtained using Bioconductor’s GenomicAlignment.
DeSeq was used to analyze the RNAseq raw gene counts and calculate differentially expressed genes
Genome_build: mm10, hg19
Supplementary_files_format_and_content: text file of RNA raw counts

source_name: Pdgfra+ Lung Cells

extract_protocol:
Cell sorting was performed using Miltenyi Biotec microbead positive selection. RNA isolation was performed as per manufacturer’s instructions using LS columns for positive selection.
RNAseq: Libraries were prepared with Illumina RNA PolyA selection
NextEra XT DNA Library Preparation Kit with 15-20 million reads

treatment_protocol: Mouse Samples: Partial pneumonectomy (PNX) was preformed on aged or control mice with or without RA pretreatment.

value: IPF

value: lung

value: Pdgfra+ Lung Cells

tag: treatment

value: Primary Cells


title: JB414-Input_CTCF


title: IPF_rep2

description:
IPF2
raw_counts_IPF.txt


title: Control_rep2

description:
Donor2
raw_counts_IPF.txt

value: Control


title: Control_rep1

description:
Donor1
raw_counts_IPF.txt


title: IPF_rep1

description:
IPF1
raw_counts_IPF.txt


title: Control_rep3

description:
Donor3
raw_counts_IPF.txt


title: MCF10A_K700E_1

city: NewYork

first: Zhaoqi

state: New York

address: ICRC Building 8th Floor, Office 803B 1130 St. Nicholas Ave

department: Systems Biology

institute: Columbia university

data_processing:
Raw data were aligned to hg19 using the STAR alignment package
Unique junction counts as determined by STAR are output to a tabular file
Genome_build: hg19 for human samples, mm10 for mouse
Supplementary_files_format_and_content: Raw junction counts for each sample as output by STAR

molecule: polyA RNA

source_name: MCF10A breast cell line

growth_protocol: All mice were housed at Memorial Sloan Kettering Cancer Center and All mouse procedures were completed in accordance with the Guidelines for the Care and Use of Laboratory Animals and were approved by the Institutional Animal Care and Use Committees at MSKCC. Cell lines were maintained in 37°C incubator with 5% CO2 in humidified atmosphere. MCF7 cells were grown in DMEM/F12 supplemented with 10% FBS (Gibco), 100 μg/mL penicillin, 100 mg/mL streptomycin (Corning), and 4 mM glutamine, and MCF10A cells were grown in DMEM/F12 supplemented with 5% horse serum (Gibco), 20ng/mL EGF (Sigma-Aldrich), 10μg/mL insulin (Sigma-Aldrich), 0.5μg/mL hydrocortisone (Sigma-Aldrich),  0.1μg/mL cholera toxin (Sigma-Aldrich), 100 μg/mL penicillin, and 100 mg/mL streptomycin (Corning). T47D cells were cultured in RPMI1640 with 10% FBS (Gibco), 100 μg/mL penicillin and 100 mg/mL streptomycin (Corning).

extract_protocol:
Mammary gland epithelial cells were isolated from 4-month old mice. Breifly, mammary glands dissected from 4-month-old female mice were minced and digested with collagenase/trypsin mixture for 4 hours at 37C. After washed with L15 medium supplemented with 10% FBS, the red blood cells were lysed with Hybri-Max Red Blood Cell Lysing Buffer (Sigma). After washing with L15/10% FBS medium, the samples were incubated in serum-free Joklik’s medium and then treated with 0.05% trypsin and DNase I (Fisher Scientific). Trypsin was neutralized by adding L15/10% FBS medium and the samples were filtered through a 40m cell strainer to remove cell clumps and debris. Cells were pelleted and resuspended in L15/10% FBS medium. Fluorescence-activated cell sorting (FACS) was used to isolate mammary epithelial cells. The cells were incubated with antibodies against CD24 and CD45 in L15/10% FBS medium on ice for 45 min. DAPI was used to exclude dead cells. The mammary epithelial cells were sorted as CD24+/CD45- cells on FACS Aria sorter. Human cell lines were hearvested at 70% to 80% confluence. Total RNA was extracted with Direct-Zol RNA miniprep kit (Zymo).
Libraries were constructed with TruSeq RNA-seq prep kit by Genewiz or MSKCC Integrated Genomics Operation Core Facility.

treatment_protocol: MCF7 and T47D cell were treated with doxycycline to induce wild-type or mutant SF3B1 expression for 48 hours before hearvesting cells.

value: MCF10A breast cell line

tag: genotype

value: SF3B1 K700E


title: MCF10A_K700E_2


title: T47D_K700E_2

source_name: T47D breast cancer cell line

value: T47D breast cancer cell line


title: T47D_K700E_1


title: MCF10A_WT_1

value: wild type


title: T47D_WT_2


title: MCF7_K700E_1

source_name: MCF7 breast cancer cell line

value: MCF7 breast cancer cell line


title: MCF7_WT_1


title: MCF7_K700E_2


title: MCF7_WT_2


title: 16HBE_HZ_A

city: NEW YORK

first: Shivang

last: Shah

address: 622 WEST 168TH ST

institute: Columbia University Medical Center

data_processing:
Quality control performed with FastQC (Babraham Institute) showed that on average each run generated >30 Mb of sequence, mean base quality score > 38 (i.e. error rate < 0.0002). Sequence reads were analyzed via custom Python pipeline using existing tools. Reads were first mapped to the human genome (assembly version GRCh38) using HISAT2 run with default parameters, with >90\% of reads mapping uniquely. Next, StringTie was run with default parameters to assemble transcripts and generate a consensus transcript set, followed by prepDE.py (http://ccb.jhu.edu/software/stringtie/) to generate count expression tables for input into DESeq2 in R.
Genome_build: GRCh38
Supplementary_files_format_and_content: txt (count matrix for input into DESeq2)

source_name: 16HBE human bronchial epithelium

growth_protocol: ES cell–derived NS cells were routinely generated by re-plating d 7 adherent neural differentiation cultures (typically 2–3 × 106 cells into a T75 flask) on uncoated plastic in NS-A medium (Euroclone, Milan, Italy) supplemented with modified N2 and 10 ng/ml of both EGF and FGF-2 (NS expansion medium).

extract_protocol:
Lysates prepared using TRK lysis buffer and RNA isolated via EZNA Total RNA kit (Omega Biotek)
Paired-end sequencing libraries (read length = 150bp) were prepared according to Illumina's instructions by Omega Biosciences.

treatment_protocol: Cells were treated with HZ (conc = 0, 100, 200 ug/mL) for 24 h.

tag: experiment


title: 16HBE_HZ_G


title: 16HBE_HZ_4


title: 16HBE_HZ_D


title: 16HBE_HZ_1


title: 16HBE_HZ_7


title: MCF10A_WT_2


title: ChIP-anti-H3K4MG

city: Wuhan

first: Zheng-Wei

last: Fu

state: Hubei

address: Bayi road

department: College of Life Sciences

country: China

institute: Wuhan University

data_processing:
RNA-seq: SOAPnuke v1.5.2 software used for basecalling with parameters -l 15 -q 0.5 -n 0.1.
RNA-seq: HISAT2 v2.0.4 software used for alignment with parameters -p 8 -phred64 -sensitive -I 1 -X 10000.
RNA-seq: Fragments per kilobase of transcript per million mapped reads (FPKM) were calculated using HTSeq-count.
ChIP-seq: SOAPnuke v1.5.2 software used for basecalling with parametersr -l 10 -q 0.4 -n 0.1 -Q 2 -c 25 -5 1.
ChIP-seq: SOAPaligner v2.21t software used for alignment with parameters soap_mm_gz -p 4 -v 2 -s 35.
ChIP-seq: Tag-enriched regions were identified by SICER (Zang, C. et al., 2009 Bioinformatics) with a window size of 200 bp and gap size of 600 bp.
ChIP-seq: Peak annotation was performed using the R package ChIPseeker (Yu, G. et al., 2015 Bioinformatics).
Genome_build: Tair10 (http://www.arabidopsis.org/)
Supplementary_files_format_and_content: RNA-seq: tab-delimited text files include RPKM values; ChIP-seq: wig files were generated using SICER with a window size of 200 bp and gap size of 600 bp.

organism: Arabidopsis thaliana

growth_protocol: Five-day-old seedlings grown on medium containing 1/2 strength MS solid medium.

extract_protocol:
RNA was extracted using TRIzol reagent and mRNA was enriched with magnetic beads with Oligo (dT); Genomic DNA for ChIP-seq analysis  were digested by micrococcal nuclease.
RNA libraries were prepared for sequencing using standard BGISEQ-500 protocols; ChIP genomic DNA libraries were prepared for sequencing using Illumina Paired-End DNA Sample Prep kit.

tag: genotype/variation

value: seedlings

tag: chip antibody


title: input

source_name: input


title: ChIP-anti-MMP

source_name: ChIP-anti-MMP

value: anti-MMP


title: Disw H3 rep 2

city: Athens

first: Zachary

middle: A

last: Lewis

state: GA

address: 1000 Cedar St. Biosciences Bldg

department: Microbiology

institute: University of Georgia

description:
ChIP DNA
115-22 isw H3 Rep 2

data_processing:
base calling RTA2.0
fastq generation basespace
short reads (<20 bp) and adaptor sequences were removed using TrimGalore (version 0.4.4), cutadapt version 1.14 , and Python 2.7.8, with fastqc command (version 0.11.3)
using the BWA (version 0.7.15), mem algorithm
sorted and indexed using SAMtools (version 1.9)
tdf
Nc12 Genbank accession #: GCA_000182925.2

organism: Neurospora crassa

source_name: mycelial culture

extract_protocol:
immunoprecipitation/phenol chloroform/ethanol precipitation
NEB NEXT reagents/adaptor ligation

treatment_protocol: constant light; standard growth conditions

value: isw


title: Disw Mnase rep 3

description:
Mnase DNA
113-66_Rapid MNase_iswi__Rep3

data_processing:
base calling RTA2.0
fastq generation basespace
short reads (<20 bp) and adaptor sequences were removed using TrimGalore (version 0.4.4), cutadapt version 1.14 , and Python 2.7.8, with fastqc command (version 0.11.3)
using the BWA (version 0.7.15), mem algorithm
sorted and indexed using SAMtools (version 1.9)
bigwig
Nc12 Genbank accession #: GCA_000182925.2


title: WT H3 rep 1

description:
ChIP DNA
115-17 WT H3 rep1


title: Disw H3 rep 1

description:
ChIP DNA
115-21 isw H3 REP1


title: WT H3 rep 2

description:
ChIP DNA
115-18 WT H3 rep 2


title: wild type MNase rep 3

description:
Mnase DNA
113-63_Rapid MNase_WT__Rep3


title: Disw Mnase rep 1

description:
Mnase DNA
113-64_Rapid MNase_iswi__Rep1


title: T47D_WT_1


title: wild type MNase rep 1

description:
Mnase DNA
113-61_Rapid MNase_WT__Rep1


title: Disw H3K36me3 rep 1

description:
ChIP DNA
102-3_CHiP_crf4-1_crf4-1_H3K36me3_Rep1_Nc_ON


title: Dacf; Diaf-1 H3K27me2/3 rep 2

description:
ChIP DNA
113-14_ChIP_106prog_K27m2m3_Rep2

value: acf; iaf-1


title: Dacf; Diaf-1 H3K27me2/3 rep 1

description:
ChIP DNA
113-10_ChIP_106prog_K27m2m3_Rep1


title: Disw H3K36me3 rep 2

description:
ChIP DNA
103-65_ChIP_KOp7H4_Disw-1_K36me3_Rep1_Nc_ON


title: Diaf-1; Diaf-2 rep 1, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
118-45____

data_processing:
base calling RTA2.0
fastq generation basespace
short reads (<20 bp) and adaptor sequences were removed using TrimGalore (version 0.4.4), cutadapt version 1.14 , and Python 2.7.8, with fastqc command (version 0.11.3)
aligned to genome using Hierarchical Indexing for Spliced Alignment of Transcripts 2 (HISAT2: version 2.1.0) with parameters –RNA-strandness R
sorted and indexed using SAMtools (version 1.9)
FeatureCounts from Subread (version 1.6.2) was used to generate gene level counts for all RNA bam files
Nc12 Genbank accession #: GCA_000182925.2

extract_protocol:
Trizol/lithium chloride
libraries were made using the Illumina TruSeq mRNA stranded Library Kit (cat. # RS-122-2101) according to manufacturer instructions.

value: iaf-1; iaf-2


title: Dacf; Diaf-2 rep 2, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
118-44____acf;iaf-2

value: acf; iaf-2


title: Dacf; Diaf-2 rep 3, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
118-25____acf;iaf-2


title: Dacf; Diaf-2 rep 1, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
Sorted118-7__acf_iaf2__R1


title: Diaf-1; Diaf-2 rep 2 batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
118-46____


title: Dacf; Diaf-1 rep 3, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
118-15__acf_iaf1__Rep3


title: Dacf; Diaf-1 rep 2, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
118-14__acf_iaf1__Rep2


title: Disw rep 3, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
Sorted118-6__isw__R3


title: Disw Mnase rep 2

description:
Mnase DNA
113-65_Rapid MNase_iswi__Rep2


title: Dacf; Diaf-1;Diaf-2 rep 3, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
118-48_triple_rep3

value: acf; iaf-1;iaf-2


title: Dacf; Diaf-1 rep 1 batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
118-13__acf_iaf1__Rep1


title: Disw rep 1, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
Sorted118-4__isw__R1_


title: wild type rep 1, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
Sorted118-1_RNA-seq_WT__R1_


title: wild type rep 3, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
Sorted118-3__WT__R3_S3_R1_


title: Disw rep 2, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
Sorted118-5__isw__R2


title: 111-22 WT H3K27me3

data_processing:
base calling RTA2.0
fastq generation basespace
short reads (<20 bp) and adaptor sequences were removed using TrimGalore (version 0.4.4), cutadapt version 1.14 , and Python 2.7.8, with fastqc command (version 0.11.3)
using the BWA (version 0.7.15), mem algorithm
sorted and indexed using SAMtools (version 1.9)
bigwigs created in deeptools version 3.31
Nc12 Genbank accession #: GCA_000182925.2


title: wild type MNAse rep 2

description:
Mnase DNA
113-62_Rapid MNase_WT__Rep2


title: WT H3K9me3 control


title: 105-94 iaf-2 H3K27me2/3 rep 2

description: 105-94_ChIP_FGSC18035_NCU09388a_K27me2me3_Rep1_Nc_ON


title: Dacf; Diaf-1;Diaf-2 rep 1, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
118-19__acf_iaf1_iaf2__Rep1


title: 105-86 iaf-1 H3K27me2/3 rep2

description: 105-86_ChIP_FGSC12715_NCU00412a_K27me2me3_Rep1_Nc_ON


title: 105-94 iaf-1 H3K27me2/3 rep 3

description: 105-88_ChIP_FGSC12716_NCU00412A_K27me2me3_Rep1_Nc_ON


title: 103-60 isw input rep 3

description: 103-60_ChIP_KOp7H4_Disw-1_Input_Rep2_Nc_ON-56989951.R1_001

value: input


title: 102-16 WT H3K27me2/3


title: 103-63 isw H3K27me2/3

description: 103-63_ChIP_KOp7H4_Disw-1_K27me2me3_Rep2_Nc_ON-56974063.R1_001


title: iaf-1 iaf-2 H3K27me3

value: iaf-1 iaf-2


title: 110-86 iaf-1 iaf-2 acf H3K27me3

description: 110_86_ChIP_Dacf_1Dncu00412Dncu09388_K27me3_Rep1_S37

value: iaf-1 iaf-2 acf


title: HSNJ-002: Peripheral Blood_Healthy control

type: RNA

city: Shanghai

first: changming

last: cheng

address: No. 151, Libing Road

institute: National Engineering Center for Biochip at Shanghai China

description: Gene expression data from healthy person with normal colonscopy

hyb_protocol: Following fragmentation, 15 μg cRNA were hybridized for 16 hr at 45℃ on GeneChip 3’IVT Expression Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.

scan_protocol: GeneChips were scanned using the Affymetrix GeneChip® System 3000Dx (GCS 3000Dx).

data_processing: The data were analyzed with Affymetrix Expression Console (ver.1.3.1) using Affymetrix default analysis settings and MAS5 global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.

label: biotin

source_name: Peripheral Blood

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 200 ng total RNA (Technical Manual for GeneChip 3’IVT Expression Kit,2013, Affymetrix).

growth_protocol: Elbow vein blood sampling and the blood was stored at -20℃ before RNA extraction.

extract_protocol: Peripheral blood of total RNA was performed according to the manufacturer's instructions (PAXgene Blood RNA kit).

treatment_protocol: Blood sample was treated according to the manusfacturer's instructions (PAXgene Blood RNA Tube)

tag: gender

value: Male

tag: age

tag: disease status

value: normal

value: Peripheral Blood


title: 109-84 acf iaf-2 H3K27me3 rep 2

value: acf iaf-2


title: 109-83 adf iaf-2 H3K27me2/3 rep 2

description: 109_83_ChIP_acf_1_09388_K27me2me3_Rep2_S52

value: adf iaf-2  rep 2


title: 109-94 iaf-1 iaf-2 H3K27me3


title: 109-93 iaf-1 iaf-2 H3K27me2/3

description: 109_93_ChIP_00412_09388_K27me2me3_Rep1_S62


title: 109-82 acf iaf-2 H3K27me3 rep 1


title: 110-85 iaf-1 iaf-2 acf H3K27me2/3

description: 110_85_ChIP_Dacf_1Dncu00412Dncu09388_K27me2me3_Rep1_S36


title: 109-81 acf iaf-2 H3K27me2/3 rep 1

description: 109_81_ChIP_acf_1_09388_K27me2me3_Rep1_S50


title: 109-80 iaf-1 H3K27me3 rep 1


title: 109-77 iaf-2 H3K27me2/3 rep 1


title: 109-78 iaf-2 H3K27me3 rep 1


title: Dacf; Diaf-1;Diaf-2 rep 2 batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
118-47__triple_Rep2


title: 108-3 isw H3K27me2/3 rep 1


title: 108-8 isw input rep 2


title: 103-62 isw H3K9me3

description: 103-62_ChIP_KOp7H4_Disw-1_K9me3_Rep1_Nc_ON


title: 108-4 isw H3K27me3 rep 1


title: 109-79 iaf-1 H3K27me2/3 rep 1


title: 108-23 acf H3K27me2/3 rep 2

value: acf


title: 108-24 acf H3K27me3


title: 102-17 WT H3K27me3

value: wild type


title: 108-20 acf H3K27me3 rep 1


title: wild type rep 2, batch 4

description:
GeoCountMatrix_Revision_11_13_2020.txt
Sorted118-2__WT__R2_S2_R1


title: 102-12 WT  input


title: 108-1 iswi input rep 1

value: iswi


title: 108-21 acf input rep 2


title: 108-17 acf input rep 1


title: 109-95 iaf-1 iaf-2 H3K27me2/3

description: 109_95_ChIP_00412_09388_K27me2me3_Rep2_S64


title: 108-11 iswi H3K27me2/3 rep 2


title: 108-12 iswi H3K27me3 rep 2


title: 112-8 acf rep 2.2


title: 112-7 acf rep 1.2


title: 112.9 acr rep 3.1


title: 112-6 set-7 rep 3.1


title: 108-10 iswi H3K9me3 REP 2


title: 112-5 set-7 rep 2.1


title: 112-4 set-7 rep 1.1


title: 108-2 isw H3K9me3 rep 1


title: 112-3 WT rep 3.3


title: 112-1 WT rep 1.2


title: 112-10 acf; iaf-1; iaf-2 rep 3

description: 112_12_RNA_NCU00164_NCU09388_NCU00412__Rep3_S12

value: acf; iaf-1 iaf-2


title: 111-51 acf rep 3


title: 108-19 acf H3K27me2/3 rep 1


title: 112-10 acf; iaf-1; iaf-2 rep 1

description: 112_10_RNA_NCU00164_NCU09388_NCU00412__Rep1_S10


title: 112-11 acf; iaf-1; iaf-2 rep 2

description: 112_11_RNA_NCU00164_NCU09388_NCU00412__Rep2_S11


title: 111-50 acf rep 2


title: 111-45 iaf-2 rep 3


title: 111-49 acf rep 1


title: 111-40 iaf-1 rep 1


title: 111-42 iaf-1 rep 3


title: 111-43 iaf-2 rep 1


title: 111-44 iaf-2 rep 2


title: 111-41 iaf-1 rep 2


title: 111-39 WT rep 3.1


title: 111-38 WT rep 2.1


title: HSC-2 SP6

city: Okayama

first: Toshiaki

last: Ohara

state: Okayama

address: 2-5-1 Shikata-cho

department: Pathology & Experimental Medicine

country: Japan

institute: Okayama University Graduate School of Medicine, Dentistry and Pharmaceutical Sciences

hyb_protocol: Following fragmentation, 1.65 ug of cRNA were hybridized to the Agilent expression microarray according to the protocols provided by the manufacturer.

scan_protocol: Arrays were scanned using the Agilent Technologies G4900DA SG12494263.

data_processing: Array data export processing and analysis was performed using Agilent Feature Extraction v11.0.1.1.

source_name: HSC-2 RRID:CVCL_1287

label_protocol: Labeled cRNA were prepared from 1~5 ug total RNA using the Agilent’s Quick Amp Labeling Kit.

growth_protocol: All cells were incubated at 37°C in a humidified atmosphere containing 5% CO2. TE8 cells were maintained in RPMI containing 10% fetal calf serum (FCS), 50 U/ml of penicillin and 50 U/ml of streptomycin. HSC-2 cells were maintained in DMEM containing 10% FCS, 50  U/mL penicillin, and 50 U/mL streptomycin.

extract_protocol: Total RNA was isolated from TE8 and HSC-2 cells using a High Pure RNA Isolation kit (Roche Applied Science).

treatment_protocol: CDDP(10µM), DFX(50µM), SP6(100µg/ml), SP10(5µg/ml) were treated for 24 hours of incubation with medium and reagents.

value: Cancer cell line

value: Squamous cell carcinoma


title: 112-2 WT rep 2.2


title: HSC-2 DFX


title: Visual Cortex Dark-reared P28 B6 Cell 192

city: Cambridge

first: Longzhi

last: Tan

state: MA

address: 12 Oxford St

department: Chemistry and Chemical Biology

institute: Harvard University

data_processing:
Reads were mapped and processsed with the dip-c (https://github.com/tanlongzhi/dip-c) and hickit (https://github.com/lh3/hickit) packages, generating chromatin contacts and 3D genome structures. Please see 00README.txt
Genome_build: mm10

organism: Mus musculus

source_name: visual cortex

extract_protocol:
Dip-C; step-by-step protocol at https://dx.doi.org/10.17504/protocols.io.bpsxmnfn (nuclei isolation)
Dip-C; step-by-step protocol at https://dx.doi.org/10.17504/protocols.io.bpt7mnrn (chromosome conformation capture) and https://dx.doi.org/10.17504/protocols.io.bpt8mnrw (whole-genome amplification)

value: visual cortex

tag: strain

tag: Sex

value: male

value: dark rearing


title: Visual Cortex Dark-reared P28 B6 Cell 190


title: Visual Cortex Dark-reared P28 B6 Cell 188


title: Visual Cortex Dark-reared P28 B6 Cell 189


title: Visual Cortex Dark-reared P28 B6 Cell 191


title: HSC-2 Control


title: TE8 DFEX

source_name: TE8 RRID:CVCL_1766


title: Visual Cortex Dark-reared P28 B6 Cell 186


title: TE8 CDDP


title: Visual Cortex Dark-reared P28 B6 Cell 185


title: Visual Cortex Dark-reared P28 B6 Cell 177


title: Visual Cortex Dark-reared P28 B6 Cell 176


title: Visual Cortex Dark-reared P28 B6 Cell 182


title: Visual Cortex Dark-reared P28 B6 Cell 184


title: Visual Cortex Dark-reared P28 B6 Cell 183


title: Visual Cortex Dark-reared P28 B6 Cell 181


title: Visual Cortex Dark-reared P28 B6 Cell 178


title: HSC-2 CDDP


title: Visual Cortex Dark-reared P28 B6 Cell 179


title: Visual Cortex Dark-reared P28 B6 Cell 187


title: TE8 SP10


title: TE8 Control


title: Visual Cortex Dark-reared P28 B6 Cell 174


title: Visual Cortex Dark-reared P28 B6 Cell 171


title: Visual Cortex Dark-reared P28 B6 Cell 172


title: Visual Cortex Dark-reared P28 B6 Cell 170


title: Visual Cortex Dark-reared P28 B6 Cell 180


title: Visual Cortex Dark-reared P28 B6 Cell 168


title: Visual Cortex Dark-reared P28 B6 Cell 175


title: Visual Cortex Dark-reared P28 B6 Cell 162


title: Visual Cortex Dark-reared P28 B6 Cell 164


title: Visual Cortex Dark-reared P28 B6 Cell 163


title: Visual Cortex Dark-reared P28 B6 Cell 169


title: Visual Cortex Dark-reared P28 B6 Cell 165


title: Visual Cortex Dark-reared P28 B6 Cell 160


title: Visual Cortex Dark-reared P28 B6 Cell 151


title: Visual Cortex Dark-reared P28 B6 Cell 152


title: Visual Cortex Dark-reared P28 B6 Cell 157


title: Visual Cortex Dark-reared P28 B6 Cell 158


title: Visual Cortex Dark-reared P28 B6 Cell 149


title: Visual Cortex Dark-reared P28 B6 Cell 148


title: Visual Cortex Dark-reared P28 B6 Cell 159


title: Visual Cortex Dark-reared P28 B6 Cell 155


title: Visual Cortex Dark-reared P28 B6 Cell 167


title: Visual Cortex Dark-reared P28 B6 Cell 150


title: Visual Cortex Dark-reared P28 B6 Cell 146


title: Visual Cortex Dark-reared P28 B6 Cell 154


title: Visual Cortex Dark-reared P28 B6 Cell 145


title: Visual Cortex Dark-reared P28 B6 Cell 166


title: Visual Cortex Dark-reared P28 B6 Cell 161


title: 111-37 WT rep 1.1


title: Visual Cortex Dark-reared P28 B6 Cell 173


title: Visual Cortex Dark-reared P28 B6 Cell 144


title: Visual Cortex Dark-reared P28 B6 Cell 143


title: Visual Cortex Dark-reared P28 B6 Cell 141


title: Visual Cortex Dark-reared P28 B6 Cell 156


title: Visual Cortex Dark-reared P28 B6 Cell 153


title: Visual Cortex Dark-reared P28 B6 Cell 136


title: Visual Cortex Dark-reared P28 B6 Cell 142


title: Visual Cortex Dark-reared P28 B6 Cell 138


title: Visual Cortex Dark-reared P28 B6 Cell 137


title: Visual Cortex Dark-reared P28 B6 Cell 140


title: Visual Cortex Dark-reared P28 B6 Cell 135


title: Visual Cortex Dark-reared P28 B6 Cell 134


title: Visual Cortex Dark-reared P28 B6 Cell 132


title: Visual Cortex Dark-reared P28 B6 Cell 133


title: Visual Cortex Dark-reared P28 B6 Cell 147


title: Visual Cortex Dark-reared P28 B6 Cell 130


title: Visual Cortex Dark-reared P28 B6 Cell 131


title: Visual Cortex Dark-reared P28 B6 Cell 128


title: Visual Cortex Dark-reared P28 B6 Cell 129


title: Visual Cortex Dark-reared P28 B6 Cell 126


title: Visual Cortex Dark-reared P28 B6 Cell 127


title: Visual Cortex Dark-reared P28 B6 Cell 121


title: Visual Cortex Dark-reared P28 B6 Cell 122


title: Visual Cortex Dark-reared P28 B6 Cell 125


title: Visual Cortex Dark-reared P28 B6 Cell 123


title: Visual Cortex Dark-reared P28 B6 Cell 119


title: Visual Cortex Dark-reared P28 B6 Cell 120


title: Visual Cortex Dark-reared P28 B6 Cell 118


title: Visual Cortex Dark-reared P28 B6 Cell 139


title: Visual Cortex Dark-reared P28 B6 Cell 117


title: Visual Cortex Dark-reared P28 B6 Cell 124


title: Visual Cortex Dark-reared P28 B6 Cell 113


title: Visual Cortex Dark-reared P28 B6 Cell 112


title: Visual Cortex Dark-reared P28 B6 Cell 115


title: Visual Cortex Dark-reared P28 B6 Cell 114


title: Visual Cortex Dark-reared P28 B6 Cell 111


title: Visual Cortex Dark-reared P28 B6 Cell 110


title: Visual Cortex Dark-reared P28 B6 Cell 108


title: Visual Cortex Dark-reared P28 B6 Cell 104


title: Visual Cortex Dark-reared P28 B6 Cell 107


title: Visual Cortex Dark-reared P28 B6 Cell 116


title: Visual Cortex Dark-reared P28 B6 Cell 106


title: Visual Cortex Dark-reared P28 B6 Cell 103


title: Visual Cortex Dark-reared P28 B6 Cell 102


title: Visual Cortex Dark-reared P28 B6 Cell 101


title: Visual Cortex Dark-reared P28 B6 Cell 105


title: Visual Cortex Dark-reared P28 B6 Cell 098


title: Visual Cortex Dark-reared P28 B6 Cell 100


title: Visual Cortex Dark-reared P28 B6 Cell 099


title: Visual Cortex Dark-reared P28 B6 Cell 097


title: Visual Cortex Dark-reared P28 B6 Cell 096


title: Visual Cortex Dark-reared P28 B6 Cell 092


title: Visual Cortex Dark-reared P28 B6 Cell 089


title: Visual Cortex Dark-reared P28 B6 Cell 094


title: Visual Cortex Dark-reared P28 B6 Cell 091


title: Visual Cortex Dark-reared P28 B6 Cell 109


title: Visual Cortex Dark-reared P28 B6 Cell 087


title: Visual Cortex Dark-reared P28 B6 Cell 093


title: Visual Cortex Dark-reared P28 B6 Cell 083


title: Visual Cortex Dark-reared P28 B6 Cell 088


title: Visual Cortex Dark-reared P28 B6 Cell 095


title: Visual Cortex Dark-reared P28 B6 Cell 084


title: Visual Cortex Dark-reared P28 B6 Cell 080


title: Visual Cortex Dark-reared P28 B6 Cell 086


title: Visual Cortex Dark-reared P28 B6 Cell 077


title: Visual Cortex Dark-reared P28 B6 Cell 076


title: Visual Cortex Dark-reared P28 B6 Cell 082


title: Visual Cortex Dark-reared P28 B6 Cell 078


title: Visual Cortex Dark-reared P28 B6 Cell 075


title: Visual Cortex Dark-reared P28 B6 Cell 079


title: Visual Cortex Dark-reared P28 B6 Cell 072


title: Visual Cortex Dark-reared P28 B6 Cell 073


title: Visual Cortex Dark-reared P28 B6 Cell 071


title: Visual Cortex Dark-reared P28 B6 Cell 068


title: Visual Cortex Dark-reared P28 B6 Cell 070


title: Visual Cortex Dark-reared P28 B6 Cell 066


title: Visual Cortex Dark-reared P28 B6 Cell 090


title: Visual Cortex Dark-reared P28 B6 Cell 063


title: Visual Cortex Dark-reared P28 B6 Cell 069


title: Visual Cortex Dark-reared P28 B6 Cell 081


title: Visual Cortex Dark-reared P28 B6 Cell 065


title: Visual Cortex Dark-reared P28 B6 Cell 064


title: Visual Cortex Dark-reared P28 B6 Cell 067


title: Visual Cortex Dark-reared P28 B6 Cell 085


title: Visual Cortex Dark-reared P28 B6 Cell 056


title: Visual Cortex Dark-reared P28 B6 Cell 057


title: Visual Cortex Dark-reared P28 B6 Cell 062


title: Visual Cortex Dark-reared P28 B6 Cell 074


title: Visual Cortex Dark-reared P28 B6 Cell 060


title: Visual Cortex Dark-reared P28 B6 Cell 061


title: Visual Cortex Dark-reared P28 B6 Cell 059


title: Visual Cortex Dark-reared P28 B6 Cell 055


title: Visual Cortex Dark-reared P28 B6 Cell 058


title: Visual Cortex Dark-reared P28 B6 Cell 054


title: Visual Cortex Dark-reared P28 B6 Cell 052


title: Visual Cortex Dark-reared P28 B6 Cell 053


title: Visual Cortex Dark-reared P28 B6 Cell 051


title: Visual Cortex Dark-reared P28 B6 Cell 045


title: Visual Cortex Dark-reared P28 B6 Cell 047


title: Visual Cortex Dark-reared P28 B6 Cell 050


title: Visual Cortex Dark-reared P28 B6 Cell 046


title: Visual Cortex Dark-reared P28 B6 Cell 042


title: Visual Cortex Dark-reared P28 B6 Cell 044


title: Visual Cortex Dark-reared P28 B6 Cell 043


title: Visual Cortex Dark-reared P28 B6 Cell 037


title: Visual Cortex Dark-reared P28 B6 Cell 039


title: Visual Cortex Dark-reared P28 B6 Cell 040


title: Visual Cortex Dark-reared P28 B6 Cell 030


title: Visual Cortex Dark-reared P28 B6 Cell 048


title: Visual Cortex Dark-reared P28 B6 Cell 029


title: Visual Cortex Dark-reared P28 B6 Cell 032


title: Visual Cortex Dark-reared P28 B6 Cell 038


title: Visual Cortex Dark-reared P28 B6 Cell 034


title: Visual Cortex Dark-reared P28 B6 Cell 041


title: Visual Cortex Dark-reared P28 B6 Cell 035


title: Visual Cortex Dark-reared P28 B6 Cell 027


title: Visual Cortex Dark-reared P28 B6 Cell 031


title: Visual Cortex Dark-reared P28 B6 Cell 033


title: Visual Cortex Dark-reared P28 B6 Cell 028


title: Visual Cortex Dark-reared P28 B6 Cell 026


title: Visual Cortex Dark-reared P28 B6 Cell 023


title: Visual Cortex Dark-reared P28 B6 Cell 025


title: Visual Cortex Dark-reared P28 B6 Cell 049


title: Visual Cortex Dark-reared P28 B6 Cell 020


title: Visual Cortex Dark-reared P28 B6 Cell 024


title: Visual Cortex Dark-reared P28 B6 Cell 018


title: Visual Cortex Dark-reared P28 B6 Cell 017


title: Visual Cortex Dark-reared P28 B6 Cell 019


title: Visual Cortex Dark-reared P28 B6 Cell 021


title: Visual Cortex Dark-reared P28 B6 Cell 036


title: Visual Cortex Dark-reared P28 B6 Cell 022


title: Visual Cortex Dark-reared P28 B6 Cell 016


title: Visual Cortex Dark-reared P28 B6 Cell 014


title: Visual Cortex Dark-reared P28 B6 Cell 013


title: Visual Cortex Dark-reared P28 B6 Cell 010


title: Visual Cortex Dark-reared P28 B6 Cell 011


title: Visual Cortex Dark-reared P28 B6 Cell 004


title: Visual Cortex Dark-reared P28 B6 Cell 008


title: Visual Cortex Dark-reared P21 B6 Cell 192


title: Visual Cortex Dark-reared P28 B6 Cell 006


title: Visual Cortex Dark-reared P28 B6 Cell 003


title: Visual Cortex Dark-reared P28 B6 Cell 005


title: Visual Cortex Dark-reared P28 B6 Cell 007


title: Visual Cortex Dark-reared P28 B6 Cell 001


title: Visual Cortex Dark-reared P21 B6 Cell 190


title: Visual Cortex Dark-reared P21 B6 Cell 186


title: Visual Cortex Dark-reared P21 B6 Cell 191


title: Visual Cortex Dark-reared P21 B6 Cell 188


title: Visual Cortex Dark-reared P21 B6 Cell 187


title: Visual Cortex Dark-reared P21 B6 Cell 180


title: Visual Cortex Dark-reared P28 B6 Cell 009


title: Visual Cortex Dark-reared P21 B6 Cell 185


title: Visual Cortex Dark-reared P21 B6 Cell 182


title: Visual Cortex Dark-reared P21 B6 Cell 183


title: Visual Cortex Dark-reared P28 B6 Cell 012


title: Visual Cortex Dark-reared P21 B6 Cell 179


title: Visual Cortex Dark-reared P21 B6 Cell 181


title: Visual Cortex Dark-reared P28 B6 Cell 015


title: Visual Cortex Dark-reared P21 B6 Cell 184


title: Visual Cortex Dark-reared P21 B6 Cell 176


title: Visual Cortex Dark-reared P21 B6 Cell 174


title: Visual Cortex Dark-reared P21 B6 Cell 178


title: Visual Cortex Dark-reared P21 B6 Cell 177


title: Visual Cortex Dark-reared P21 B6 Cell 175


title: Visual Cortex Dark-reared P21 B6 Cell 173


title: Visual Cortex Dark-reared P21 B6 Cell 170


title: Visual Cortex Dark-reared P21 B6 Cell 171


title: Visual Cortex Dark-reared P21 B6 Cell 169


title: Visual Cortex Dark-reared P21 B6 Cell 168


title: Visual Cortex Dark-reared P21 B6 Cell 167


title: Visual Cortex Dark-reared P21 B6 Cell 164


title: Visual Cortex Dark-reared P21 B6 Cell 163


title: Visual Cortex Dark-reared P21 B6 Cell 162


title: Visual Cortex Dark-reared P21 B6 Cell 166


title: Visual Cortex Dark-reared P21 B6 Cell 165


title: Visual Cortex Dark-reared P21 B6 Cell 160


title: Visual Cortex Dark-reared P21 B6 Cell 159


title: Visual Cortex Dark-reared P21 B6 Cell 161


title: Visual Cortex Dark-reared P21 B6 Cell 158


title: Visual Cortex Dark-reared P21 B6 Cell 152


title: Visual Cortex Dark-reared P21 B6 Cell 154


title: Visual Cortex Dark-reared P21 B6 Cell 153


title: Visual Cortex Dark-reared P21 B6 Cell 172


title: Visual Cortex Dark-reared P21 B6 Cell 155


title: Visual Cortex Dark-reared P21 B6 Cell 149


title: Visual Cortex Dark-reared P21 B6 Cell 147


title: Visual Cortex Dark-reared P21 B6 Cell 148


title: Visual Cortex Dark-reared P21 B6 Cell 150


title: Visual Cortex Dark-reared P21 B6 Cell 145


title: Visual Cortex Dark-reared P21 B6 Cell 141


title: Visual Cortex Dark-reared P21 B6 Cell 144


title: Visual Cortex Dark-reared P21 B6 Cell 142


title: Visual Cortex Dark-reared P21 B6 Cell 139


title: Visual Cortex Dark-reared P21 B6 Cell 146


title: Visual Cortex Dark-reared P21 B6 Cell 138


title: Visual Cortex Dark-reared P21 B6 Cell 136


title: Visual Cortex Dark-reared P21 B6 Cell 157


title: Visual Cortex Dark-reared P21 B6 Cell 137


title: Visual Cortex Dark-reared P21 B6 Cell 156


title: Visual Cortex Dark-reared P21 B6 Cell 134


title: Visual Cortex Dark-reared P21 B6 Cell 133


title: Visual Cortex Dark-reared P21 B6 Cell 132


title: Visual Cortex Dark-reared P21 B6 Cell 131


title: Visual Cortex Dark-reared P21 B6 Cell 130


title: Visual Cortex Dark-reared P21 B6 Cell 127


title: Visual Cortex Dark-reared P21 B6 Cell 126


title: Visual Cortex Dark-reared P21 B6 Cell 129


title: Visual Cortex Dark-reared P21 B6 Cell 128


title: Visual Cortex Dark-reared P21 B6 Cell 125


title: Visual Cortex Dark-reared P21 B6 Cell 120


title: Visual Cortex Dark-reared P21 B6 Cell 122


title: Visual Cortex Dark-reared P21 B6 Cell 121


title: Visual Cortex Dark-reared P21 B6 Cell 123


title: Visual Cortex Dark-reared P21 B6 Cell 119


title: Visual Cortex Dark-reared P21 B6 Cell 140


title: Visual Cortex Dark-reared P21 B6 Cell 118


title: Visual Cortex Dark-reared P21 B6 Cell 143


title: Visual Cortex Dark-reared P21 B6 Cell 116


title: Visual Cortex Dark-reared P21 B6 Cell 135


title: Visual Cortex Dark-reared P21 B6 Cell 115


title: Visual Cortex Dark-reared P21 B6 Cell 117


title: Visual Cortex Dark-reared P21 B6 Cell 113


title: Visual Cortex Dark-reared P21 B6 Cell 114


title: Visual Cortex Dark-reared P21 B6 Cell 108


title: Visual Cortex Dark-reared P21 B6 Cell 111


title: Visual Cortex Dark-reared P21 B6 Cell 110


title: Visual Cortex Dark-reared P21 B6 Cell 109


title: Visual Cortex Dark-reared P21 B6 Cell 107


title: Visual Cortex Dark-reared P21 B6 Cell 124


title: Visual Cortex Dark-reared P21 B6 Cell 103


title: Visual Cortex Dark-reared P21 B6 Cell 151


title: Visual Cortex Dark-reared P21 B6 Cell 105


title: Visual Cortex Dark-reared P21 B6 Cell 104


title: Visual Cortex Dark-reared P21 B6 Cell 101


title: Visual Cortex Dark-reared P21 B6 Cell 098


title: Visual Cortex Dark-reared P21 B6 Cell 099


title: Visual Cortex Dark-reared P21 B6 Cell 097


title: Visual Cortex Dark-reared P21 B6 Cell 096


title: Visual Cortex Dark-reared P21 B6 Cell 100


title: Visual Cortex Dark-reared P21 B6 Cell 095


title: Visual Cortex Dark-reared P21 B6 Cell 106


title: Visual Cortex Dark-reared P21 B6 Cell 094


title: Visual Cortex Dark-reared P21 B6 Cell 091


title: Visual Cortex Dark-reared P21 B6 Cell 093


title: Visual Cortex Dark-reared P21 B6 Cell 092


title: Visual Cortex Dark-reared P21 B6 Cell 112


title: Visual Cortex Dark-reared P21 B6 Cell 089


title: Visual Cortex Dark-reared P21 B6 Cell 085


title: Visual Cortex Dark-reared P21 B6 Cell 083


title: Visual Cortex Dark-reared P21 B6 Cell 084


title: Visual Cortex Dark-reared P21 B6 Cell 086


title: Visual Cortex Dark-reared P21 B6 Cell 102


title: Visual Cortex Dark-reared P21 B6 Cell 082


title: Visual Cortex Dark-reared P21 B6 Cell 088


title: Visual Cortex Dark-reared P21 B6 Cell 087


title: Visual Cortex Dark-reared P21 B6 Cell 079


title: Visual Cortex Dark-reared P21 B6 Cell 189


title: Visual Cortex Dark-reared P21 B6 Cell 080


title: Visual Cortex Dark-reared P21 B6 Cell 081


title: Visual Cortex Dark-reared P21 B6 Cell 078


title: Visual Cortex Dark-reared P21 B6 Cell 077


title: Visual Cortex Dark-reared P21 B6 Cell 073


title: Visual Cortex Dark-reared P21 B6 Cell 076


title: Visual Cortex Dark-reared P21 B6 Cell 075


title: Visual Cortex Dark-reared P21 B6 Cell 072


title: Visual Cortex Dark-reared P21 B6 Cell 090


title: Visual Cortex Dark-reared P21 B6 Cell 074


title: Visual Cortex Dark-reared P21 B6 Cell 070


title: Visual Cortex Dark-reared P21 B6 Cell 068


title: Visual Cortex Dark-reared P21 B6 Cell 067


title: Visual Cortex Dark-reared P21 B6 Cell 066


title: Visual Cortex Dark-reared P21 B6 Cell 069


title: Visual Cortex Dark-reared P21 B6 Cell 065


title: Visual Cortex Dark-reared P21 B6 Cell 071


title: Visual Cortex Dark-reared P21 B6 Cell 064


title: Visual Cortex Dark-reared P21 B6 Cell 058


title: Visual Cortex Dark-reared P21 B6 Cell 061


title: Visual Cortex Dark-reared P21 B6 Cell 059


title: Visual Cortex Dark-reared P21 B6 Cell 055


title: Visual Cortex Dark-reared P21 B6 Cell 051


title: Visual Cortex Dark-reared P21 B6 Cell 053


title: Visual Cortex Dark-reared P21 B6 Cell 050


title: Visual Cortex Dark-reared P21 B6 Cell 056


title: Visual Cortex Dark-reared P21 B6 Cell 049


title: Visual Cortex Dark-reared P28 B6 Cell 002


title: Visual Cortex Dark-reared P21 B6 Cell 062


title: Visual Cortex Dark-reared P21 B6 Cell 046


title: Visual Cortex Dark-reared P21 B6 Cell 045


title: Visual Cortex Dark-reared P21 B6 Cell 042


title: Visual Cortex Dark-reared P21 B6 Cell 040


title: Visual Cortex Dark-reared P21 B6 Cell 043


title: Visual Cortex Dark-reared P21 B6 Cell 057


title: Visual Cortex Dark-reared P21 B6 Cell 044


title: Visual Cortex Dark-reared P21 B6 Cell 038


title: Visual Cortex Dark-reared P21 B6 Cell 037


title: Visual Cortex Dark-reared P21 B6 Cell 035


title: Visual Cortex Dark-reared P21 B6 Cell 036


title: Visual Cortex Dark-reared P21 B6 Cell 063


title: Visual Cortex Dark-reared P21 B6 Cell 052


title: Visual Cortex Dark-reared P21 B6 Cell 054


title: Visual Cortex Dark-reared P21 B6 Cell 060


title: Visual Cortex Dark-reared P21 B6 Cell 033


title: Visual Cortex Dark-reared P21 B6 Cell 031


title: Visual Cortex Dark-reared P21 B6 Cell 028


title: Visual Cortex Dark-reared P21 B6 Cell 027


title: Visual Cortex Dark-reared P21 B6 Cell 030


title: Visual Cortex Dark-reared P21 B6 Cell 047


title: Visual Cortex Dark-reared P21 B6 Cell 048


title: Visual Cortex Dark-reared P21 B6 Cell 034


title: Visual Cortex Dark-reared P21 B6 Cell 032


title: Visual Cortex Dark-reared P21 B6 Cell 024


title: Visual Cortex Dark-reared P21 B6 Cell 026


title: Visual Cortex Dark-reared P21 B6 Cell 025


title: Visual Cortex Dark-reared P21 B6 Cell 039


title: Visual Cortex Dark-reared P21 B6 Cell 022


title: Visual Cortex Dark-reared P21 B6 Cell 023


title: Visual Cortex Dark-reared P21 B6 Cell 021


title: Visual Cortex Dark-reared P21 B6 Cell 041


title: Visual Cortex Dark-reared P21 B6 Cell 017


title: Visual Cortex Dark-reared P21 B6 Cell 020


title: Visual Cortex Dark-reared P21 B6 Cell 016


title: Visual Cortex Dark-reared P21 B6 Cell 015


title: Visual Cortex Dark-reared P21 B6 Cell 014


title: Visual Cortex Dark-reared P21 B6 Cell 012


title: Visual Cortex Dark-reared P21 B6 Cell 011


title: Visual Cortex Dark-reared P21 B6 Cell 013


title: Visual Cortex Dark-reared P21 B6 Cell 010


title: Visual Cortex Dark-reared P21 B6 Cell 009


title: Visual Cortex Dark-reared P21 B6 Cell 029


title: Visual Cortex Dark-reared P21 B6 Cell 006


title: Visual Cortex Dark-reared P21 B6 Cell 004


title: Visual Cortex Dark-reared P21 B6 Cell 005


title: Visual Cortex Dark-reared P21 B6 Cell 008


title: Visual Cortex Dark-reared P21 B6 Cell 003


title: Visual Cortex Dark-reared P21 B6 Cell 002


title: Visual Cortex Dark-reared P21 B6 Cell 007


title: Visual Cortex Dark-reared P21 B6 Cell 001


title: Visual Cortex Dark-reared P21 B6 Cell 018


title: Visual Cortex Dark-reared P14 B6 Cell 189


title: Visual Cortex Dark-reared P14 B6 Cell 190


title: Visual Cortex Dark-reared P14 B6 Cell 188


title: Visual Cortex Dark-reared P21 B6 Cell 019


title: Visual Cortex Dark-reared P14 B6 Cell 187


title: Visual Cortex Dark-reared P14 B6 Cell 191


title: Visual Cortex Dark-reared P14 B6 Cell 184


title: Visual Cortex Dark-reared P14 B6 Cell 185


title: Visual Cortex Dark-reared P14 B6 Cell 182


title: Visual Cortex Dark-reared P14 B6 Cell 186


title: Visual Cortex Dark-reared P14 B6 Cell 183


title: Visual Cortex Dark-reared P14 B6 Cell 180


title: Visual Cortex Dark-reared P14 B6 Cell 179


title: Visual Cortex Dark-reared P14 B6 Cell 181


title: Visual Cortex Dark-reared P14 B6 Cell 178


title: Visual Cortex Dark-reared P14 B6 Cell 177


title: Visual Cortex Dark-reared P14 B6 Cell 174


title: Visual Cortex Dark-reared P14 B6 Cell 176


title: Visual Cortex Dark-reared P14 B6 Cell 173


title: Visual Cortex Dark-reared P14 B6 Cell 175


title: Visual Cortex Dark-reared P14 B6 Cell 192


title: Visual Cortex Dark-reared P14 B6 Cell 168


title: Visual Cortex Dark-reared P14 B6 Cell 170


title: Visual Cortex Dark-reared P14 B6 Cell 172


title: Visual Cortex Dark-reared P14 B6 Cell 167


title: Visual Cortex Dark-reared P14 B6 Cell 171


title: Visual Cortex Dark-reared P14 B6 Cell 169


title: Visual Cortex Dark-reared P14 B6 Cell 162


title: Visual Cortex Dark-reared P14 B6 Cell 163


title: Visual Cortex Dark-reared P14 B6 Cell 161


title: Visual Cortex Dark-reared P14 B6 Cell 160


title: Visual Cortex Dark-reared P14 B6 Cell 157


title: Visual Cortex Dark-reared P14 B6 Cell 164


title: Visual Cortex Dark-reared P14 B6 Cell 165


title: Visual Cortex Dark-reared P14 B6 Cell 158


title: Visual Cortex Dark-reared P14 B6 Cell 156


title: Visual Cortex Dark-reared P14 B6 Cell 153


title: Visual Cortex Dark-reared P14 B6 Cell 151


title: Visual Cortex Dark-reared P14 B6 Cell 150


title: Visual Cortex Dark-reared P14 B6 Cell 155


title: Visual Cortex Dark-reared P14 B6 Cell 149


title: Visual Cortex Dark-reared P14 B6 Cell 148


title: Visual Cortex Dark-reared P14 B6 Cell 147


title: Visual Cortex Dark-reared P14 B6 Cell 144


title: Visual Cortex Dark-reared P14 B6 Cell 145


title: Visual Cortex Dark-reared P14 B6 Cell 143


title: Visual Cortex Dark-reared P14 B6 Cell 166


title: Visual Cortex Dark-reared P14 B6 Cell 140


title: Visual Cortex Dark-reared P14 B6 Cell 159


title: Visual Cortex Dark-reared P14 B6 Cell 141


title: Visual Cortex Dark-reared P14 B6 Cell 142


title: Visual Cortex Dark-reared P14 B6 Cell 135


title: Visual Cortex Dark-reared P14 B6 Cell 136


title: Visual Cortex Dark-reared P14 B6 Cell 134


title: Visual Cortex Dark-reared P14 B6 Cell 138


title: Visual Cortex Dark-reared P14 B6 Cell 129


title: Visual Cortex Dark-reared P14 B6 Cell 154


title: Visual Cortex Dark-reared P14 B6 Cell 152


title: Visual Cortex Dark-reared P14 B6 Cell 132


title: Visual Cortex Dark-reared P14 B6 Cell 137


title: Visual Cortex Dark-reared P14 B6 Cell 130


title: Visual Cortex Dark-reared P14 B6 Cell 139


title: Visual Cortex Dark-reared P14 B6 Cell 133


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title: Visual Cortex Control P7 B6 Cell 031


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title: Visual Cortex Control P7 B6 Cell 026


title: Visual Cortex Control P7 B6 Cell 029


title: Visual Cortex Control P7 B6 Cell 025


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title: Visual Cortex Control P7 B6 Cell 027


title: Visual Cortex Control P7 B6 Cell 024


title: Visual Cortex Control P7 B6 Cell 022


title: Visual Cortex Control P7 B6 Cell 017


title: Visual Cortex Control P7 B6 Cell 073


title: Visual Cortex Control P7 B6 Cell 023


title: Visual Cortex Control P7 B6 Cell 019


title: Visual Cortex Control P7 B6 Cell 016


title: Visual Cortex Control P7 B6 Cell 015


title: Visual Cortex Control P7 B6 Cell 020


title: Visual Cortex Control P7 B6 Cell 036


title: Visual Cortex Control P7 B6 Cell 014


title: Visual Cortex Control P7 B6 Cell 010


title: Visual Cortex Control P7 B6 Cell 009


title: Visual Cortex Control P7 B6 Cell 007


title: Visual Cortex Control P7 B6 Cell 012


title: Visual Cortex Control P7 B6 Cell 013


title: Visual Cortex Control P7 B6 Cell 008


title: Visual Cortex Control P7 B6 Cell 006


title: Visual Cortex Control P7 B6 Cell 032


title: Visual Cortex Control P7 B6 Cell 003


title: Visual Cortex Control P7 B6 Cell 002


title: Visual Cortex Control P7 B6 Cell 004


title: Visual Cortex Control P7 B6 Cell 001


title: Visual Cortex Control P1 B6 Cell 192


title: Visual Cortex Control P7 B6 Cell 021


title: Visual Cortex Control P7 B6 Cell 050


title: Visual Cortex Control P1 B6 Cell 188


title: Visual Cortex Control P7 B6 Cell 005


title: Visual Cortex Control P1 B6 Cell 187


title: Visual Cortex Control P1 B6 Cell 189


title: Visual Cortex Control P1 B6 Cell 186


title: Visual Cortex Control P1 B6 Cell 191


title: Visual Cortex Control P1 B6 Cell 190


title: Visual Cortex Control P1 B6 Cell 185


title: Visual Cortex Control P1 B6 Cell 184


title: Visual Cortex Control P1 B6 Cell 183


title: Visual Cortex Control P7 B6 Cell 011


title: Visual Cortex Control P1 B6 Cell 182


title: Visual Cortex Control P1 B6 Cell 181


title: Visual Cortex Control P1 B6 Cell 180


title: Visual Cortex Control P1 B6 Cell 179


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title: Visual Cortex Control P1 B6 Cell 174


title: Visual Cortex Control P1 B6 Cell 172


title: Visual Cortex Control P7 B6 Cell 038


title: Visual Cortex Control P1 B6 Cell 176