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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
547
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
10
RRBS
9
Hi-C
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
551
Transcription
547
DNA binding
319
DNA accessibility
59
DNA methylation
9
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
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
279
November, 2017
161
May, 2021
148
May, 2020
144
February, 2021
134
May, 2022
94
February, 2023
59
September, 2020
56
September, 2018
48
July, 2018
47
October, 2019
45
August, 2021
43
April, 2018
43
June, 2019
41
August, 2017
41
November, 2018
27
July, 2019
26
December, 2018
17
January, 2019
12
March, 2020
12
November, 2020
9
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
2
May, 2019
2
October, 2018
1
January, 2018
Available data
999
bam
926
bigWig
727
fastq
497
bed narrowPeak
389
tsv
362
bigBed narrowPeak
153
zippedFastqFolder
83
bed broadPeak
83
bigBed broadPeak
63
tagAlign
39
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
8
hic
6
bedpe bed3+
hdf5
3
cool
3
tar
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1525
Homo sapiens
Biosample type
2446
tissue
952
primary cell
577
cell line
327
in vitro differentiated cells
9
stem cell
Organ
440
epithelium
399
pancreas
350
liver
90
vasculature
85
blood vessel
78
heart
68
artery
59
blood
59
bodily fluid
48
kidney
33
connective tissue
15
brain
13
vein
10
musculature of body
8
embryo
4
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
1033
AMP
324
HPAP
169
T1D
2
community
1
ITG
Genome assembly (visualization)
945
hg19
820
GRCh38
Lab
984
AMP-T2D consortium
324
Klaus Kaestner, Upenn
180
Kyle Gaulton, UCSD
32
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
128
inconsistent ontology term
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
34
missing controlled_by
Audit category:
19
inconsistent control read length
6
inconsistent control run_type
1
inconsistent assembly
files.file_type!
hdf5
target.investigated_as!
RNA binding protein
broad histone mark
BIOSAMPLE
ASSAY
1529 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
RRBS
Hi-C
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 93 more…
cell line
HepG2
315
14
1
1
2
2
2
EndoC_BH1
8
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
50
1
Panc1
9
1
+ See 14 more…
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