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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
763
ChIP-seq
355
total RNA-seq
190
ATAC-seq
154
single cell RNA-seq
33
DNase-seq
23
pCHi-C
10
Hi-C
10
RRBS
8
snATAC-seq
7
WGBS
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
FAIRE-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
763
DNA binding
513
Transcription
232
DNA accessibility
18
DNA methylation
10
3D chromatin structure
1
DNA sequencing
Target of assay
371
transcription factor
275
histone
275
histone modification
141
broad histone mark
134
narrow histone mark
118
control
89
recombinant protein
75
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
324
November, 2017
227
May, 2021
148
May, 2020
May, 2022
117
February, 2021
94
February, 2023
73
September, 2018
63
October, 2019
62
November, 2018
59
August, 2017
59
September, 2020
55
June, 2019
48
August, 2021
48
July, 2018
43
April, 2018
31
July, 2019
28
December, 2018
23
January, 2019
16
November, 2019
12
March, 2020
12
November, 2020
8
January, 2021
7
August, 2020
December, 2019
5
May, 2019
5
September, 2017
3
August, 2018
3
June, 2018
3
March, 2023
2
October, 2018
1
January, 2018
1
October, 2022
Available data
1186
bam
1130
bigWig
809
fastq
699
bed narrowPeak
464
bigBed narrowPeak
384
tsv
120
tagAlign
108
bed broadPeak
108
bigBed broadPeak
40
bed bed3+
19
zippedFastqFolder
11
bed bedMethyl
11
bigBed bedMethyl
5
hdf5
4
hic
4
tar
3
bedpe bed3+
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1576
Homo sapiens
Biosample type
2702
tissue
918
primary cell
662
cell line
392
in vitro differentiated cells
10
stem cell
Organ
410
liver
396
epithelium
355
pancreas
102
vasculature
96
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
55
kidney
39
connective tissue
21
brain
21
vein
14
musculature of body
8
embryo
5
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
1204
AMP
213
T1D
160
HPAP
2
community
1
ITG
Genome assembly (visualization)
1149
hg19
995
GRCh38
Lab
1133
AMP-T2D consortium
244
Kyle Gaulton, UCSD
160
Klaus Kaestner, Upenn
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
146
inconsistent ontology term
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
57
missing controlled_by
Audit category:
31
inconsistent control read length
9
inconsistent control run_type
3
inconsistent assembly
audit.ERROR.category!
audit script error
month_released!
December, 2019
May, 2022
BIOSAMPLE
ASSAY
1580 results
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table-tab-icon
Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
pCHi-C
Hi-C
RRBS
snATAC-seq
WGBS
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNAme array
FAIRE-seq
MPRA
...and 3 more
primary cell
monocyte
85
54
15
1
1
pancreatic alpha cell
13
52
13
12
6
pancreatic beta cell
13
21
10
12
Langerhans cell
52
CD8-positive, alpha-beta T cell
33
4
2
1
+ See 94 more…
cell line
HepG2
378
14
1
2
2
1
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
+ See 14 more…
See all biosamples
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