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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
703
ChIP-seq
360
total RNA-seq
229
ATAC-seq
186
single cell RNA-seq
56
snATAC-seq
WGBS
33
DNase-seq
pCHi-C
14
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
FAIRE-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
703
DNA binding
550
Transcription
319
DNA accessibility
14
3D chromatin structure
11
DNA methylation
1
DNA sequencing
Target of assay
314
transcription factor
275
histone
275
histone modification
141
broad histone mark
134
narrow histone mark
115
control
73
recombinant protein
54
RNA binding protein
24
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
324
November, 2017
211
May, 2021
147
May, 2020
136
February, 2021
94
February, 2023
93
May, 2022
73
September, 2018
64
October, 2019
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
November, 2020
8
January, 2021
8
March, 2020
7
August, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
October, 2022
3
August, 2018
3
June, 2018
3
March, 2023
2
October, 2018
1
January, 2018
Available data
1129
bam
1078
bigWig
768
fastq
643
bed narrowPeak
408
bigBed narrowPeak
378
tsv
120
tagAlign
112
zippedFastqFolder
108
bed broadPeak
108
bigBed broadPeak
38
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
4
tar
3
cool
2
bed bed3
1
csv
1
txt
1
vcf
Organism
1614
Homo sapiens
Biosample type
2705
tissue
1023
primary cell
595
cell line
389
in vitro differentiated cells
6
stem cell
Organ
438
epithelium
391
pancreas
367
liver
103
vasculature
97
blood vessel
79
heart
68
artery
54
blood
54
bodily fluid
53
kidney
37
connective tissue
22
vein
21
brain
14
musculature of body
8
embryo
5
eye
2
adipose tissue
1
pericardium
Project
1141
AMP
277
HPAP
197
T1D
2
community
1
ITG
Genome assembly (visualization)
1102
hg19
943
GRCh38
Lab
1070
AMP-T2D consortium
277
Klaus Kaestner, Upenn
228
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
143
inconsistent ontology term
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
54
missing controlled_by
Audit category:
26
inconsistent control read length
5
inconsistent control run_type
3
inconsistent assembly
assay_title!
WGBS
pCHi-C
month_released!
November, 2018
BIOSAMPLE
ASSAY
1618 results
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table-tab-icon
Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
DNase-seq
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
FAIRE-seq
MPRA
shRNA RNA-seq
siRNA RNA-seq
...and 1 more
primary cell
monocyte
85
54
15
1
Langerhans cell
85
48
pancreatic alpha cell
13
52
35
12
1
pancreatic beta cell
13
21
23
12
1
CD8-positive, alpha-beta T cell
33
4
2
+ See 87 more…
cell line
HepG2
333
14
1
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
45
1
Panc1
13
1
1
+ See 11 more…
See all biosamples
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