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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
204
ChIP-seq
188
ATAC-seq
97
total RNA-seq
87
single cell RNA-seq
56
snATAC-seq
41
WGBS
17
pCHi-C
10
Hi-C
10
RRBS
7
DNase-seq
1
DNAme array
1
FAIRE-seq
Assay category
252
DNA accessibility
204
DNA binding
184
Transcription
52
DNA methylation
10
3D chromatin structure
Target of assay
174
histone
174
histone modification
93
broad histone mark
81
narrow histone mark
24
control
6
RNA binding protein
6
transcription factor
1
chromatin remodeller
Date released
154
May, 2021
134
May, 2022
102
May, 2020
76
February, 2023
59
September, 2020
June, 2019
47
August, 2017
41
February, 2021
32
October, 2019
15
September, 2018
13
July, 2019
9
November, 2017
8
January, 2021
7
August, 2020
5
May, 2019
5
September, 2017
4
August, 2021
3
October, 2022
2
November, 2020
1
March, 2020
1
March, 2023
1
November, 2018
Available data
522
bigWig
510
bam
365
fastq
tsv
216
bed narrowPeak
153
zippedFastqFolder
100
tagAlign
62
bigBed narrowPeak
25
bed broadPeak
25
bigBed broadPeak
13
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
719
Homo sapiens
Biosample type
1429
tissue
719
primary cell
530
cell line
257
in vitro differentiated cells
6
stem cell
Organ
249
epithelium
194
pancreas
31
vasculature
27
blood vessel
22
vein
17
kidney
13
brain
8
blood
8
bodily fluid
7
connective tissue
7
liver
1
bone element
1
bone marrow
1
eye
1
heart
1
musculature of body
Project
318
HPAP
292
AMP
108
T1D
1
ITG
Genome assembly (visualization)
292
hg19
193
GRCh38
Lab
318
Klaus Kaestner, Upenn
257
AMP-T2D consortium
143
Kyle Gaulton, UCSD
1
ITG
Audit category:
31
audit script error
12
inconsistent ontology term
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
files.file_type!
tsv
month_released!
June, 2019
organ_slims!
limb
BIOSAMPLE
ASSAY
719 results
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ChIP-seq
ATAC-seq
total RNA-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
DNase-seq
DNAme array
FAIRE-seq
primary cell
Langerhans cell
85
48
pancreatic alpha cell
13
35
42
25
1
monocyte
85
15
1
1
1
pancreatic beta cell
13
23
11
16
1
exocrine cell
39
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