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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
737
ChIP-seq
306
total RNA-seq
221
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
48
WGBS
29
DNase-seq
23
pCHi-C
10
Hi-C
10
RRBS
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
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
737
DNA binding
497
Transcription
306
DNA accessibility
59
DNA methylation
10
3D chromatin structure
1
DNA sequencing
Target of assay
366
transcription factor
259
histone
259
histone modification
132
broad histone mark
127
narrow histone mark
113
control
89
recombinant protein
74
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
321
November, 2017
227
May, 2021
148
May, 2020
134
May, 2022
94
February, 2023
78
February, 2021
73
September, 2018
62
November, 2018
59
August, 2017
59
September, 2020
53
June, 2019
48
August, 2021
48
July, 2018
43
April, 2018
43
October, 2019
28
December, 2018
27
July, 2019
23
January, 2019
16
November, 2019
12
November, 2020
11
March, 2020
8
January, 2021
7
August, 2020
5
December, 2019
5
May, 2019
5
September, 2017
3
August, 2018
3
June, 2018
3
March, 2023
3
October, 2022
2
October, 2018
1
January, 2018
Available data
1098
bam
1055
bigWig
833
fastq
670
bed narrowPeak
447
bigBed narrowPeak
335
tsv
153
zippedFastqFolder
114
tagAlign
100
bed broadPeak
100
bigBed broadPeak
34
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
6
hic
5
bedpe bed3+
3
cool
3
hdf5
3
tar
2
bed bed3
2
csv
txt
1
vcf
Organism
1649
Homo sapiens
Biosample type
2487
tissue
1057
primary cell
595
cell line
391
in vitro differentiated cells
10
stem cell
Organ
485
epithelium
438
pancreas
415
liver
103
vasculature
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
55
kidney
39
connective tissue
22
vein
21
brain
14
musculature of body
8
embryo
5
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
1112
AMP
324
HPAP
213
T1D
2
community
1
ITG
Genome assembly (visualization)
1069
hg19
918
GRCh38
Lab
1041
AMP-T2D consortium
324
Klaus Kaestner, Upenn
244
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
146
inconsistent ontology term
30
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
files.file_type!
txt
organ_slims!
blood vessel
BIOSAMPLE
ASSAY
1652 results
search-icon
table-tab-icon
Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
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
shRNA RNA-seq
siRNA RNA-seq
...and 1 more
primary cell
monocyte
85
54
15
1
1
pancreatic alpha cell
13
52
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
13
21
23
12
16
1
CD8-positive, alpha-beta T cell
33
4
2
1
+ See 88 more…
cell line
HepG2
378
14
1
1
2
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
+ See 12 more…
See all biosamples
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