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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
622
ChIP-seq
360
total RNA-seq
229
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
48
WGBS
33
DNase-seq
23
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
622
DNA binding
551
Transcription
319
DNA accessibility
59
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
371
transcription factor
275
histone
275
histone modification
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
316
November, 2017
161
May, 2021
148
May, 2020
144
February, 2021
134
May, 2022
94
February, 2023
62
November, 2018
59
September, 2020
56
September, 2018
48
July, 2018
48
October, 2019
47
June, 2019
46
August, 2021
43
April, 2018
43
August, 2017
31
July, 2019
28
December, 2018
23
January, 2019
12
March, 2020
12
November, 2020
10
November, 2019
8
January, 2021
7
August, 2020
5
December, 2019
5
September, 2017
4
October, 2022
3
August, 2018
3
June, 2018
3
March, 2023
3
May, 2019
2
October, 2018
1
January, 2018
Available data
1073
bam
999
bigWig
795
fastq
570
bed narrowPeak
433
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
92
bed broadPeak
92
bigBed broadPeak
63
tagAlign
39
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
4
tar
3
cool
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1605
Homo sapiens
Biosample type
2454
tissue
966
primary cell
643
cell line
338
in vitro differentiated cells
9
stem cell
Organ
448
epithelium
405
liver
401
pancreas
94
vasculature
88
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
50
kidney
35
connective tissue
21
brain
13
vein
10
musculature of body
8
embryo
5
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
1113
AMP
324
HPAP
169
T1D
2
community
1
ITG
Genome assembly (visualization)
1022
hg19
888
GRCh38
Lab
1063
AMP-T2D consortium
324
Klaus Kaestner, Upenn
180
Kyle Gaulton, UCSD
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
132
inconsistent ontology term
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
36
missing controlled_by
Audit category:
25
inconsistent control read length
9
inconsistent control run_type
2
inconsistent assembly
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
1609 results
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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
FAIRE-seq
MPRA
...and 3 more
primary cell
pancreatic alpha cell
10
52
35
12
31
1
Langerhans cell
85
48
monocyte
41
54
15
1
1
pancreatic beta cell
10
21
23
12
16
1
exocrine cell
39
+ See 94 more…
cell line
HepG2
369
14
1
1
2
2
2
EndoC_BH1
9
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
9
1
1
+ See 14 more…
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