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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
245
total RNA-seq
224
ChIP-seq
198
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
47
WGBS
17
pCHi-C
10
RRBS
9
Hi-C
3
DNase-seq
2
small RNA-seq
1
DNAme array
Assay category
434
Transcription
257
DNA accessibility
224
DNA binding
58
DNA methylation
9
3D chromatin structure
Target of assay
197
histone
197
histone modification
102
broad histone mark
95
narrow histone mark
24
control
6
RNA binding protein
6
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
134
May, 2022
88
February, 2023
73
September, 2018
59
August, 2017
59
September, 2020
June, 2019
48
February, 2021
48
July, 2018
43
April, 2018
October, 2019
31
July, 2019
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
543
bigWig
523
bam
409
fastq
268
tsv
227
bed narrowPeak
153
zippedFastqFolder
100
tagAlign
49
bigBed narrowPeak
21
bed broadPeak
21
bigBed broadPeak
11
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
5
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
Organism
999
Homo sapiens
Biosample type
2332
tissue
999
primary cell
632
cell line
386
in vitro differentiated cells
10
stem cell
Organ
353
epithelium
346
pancreas
22
connective tissue
16
brain
12
kidney
12
vasculature
11
liver
8
blood
8
blood vessel
8
bodily fluid
5
heart
3
musculature of body
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
eye
1
pericardium
1
vein
Project
470
AMP
324
HPAP
204
T1D
1
ITG
Genome assembly (visualization)
562
hg19
467
GRCh38
Lab
435
AMP-T2D consortium
324
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
1
ITG
Audit category:
30
audit script error
27
inconsistent ontology term
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
month_released!
October, 2019
June, 2019
BIOSAMPLE
ASSAY
999 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
RRBS
Hi-C
DNase-seq
small RNA-seq
DNAme array
primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
21
13
23
12
16
1
CD8-positive, alpha-beta T cell
4
33
2
1
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