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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
706
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
706
DNA binding
551
Transcription
319
DNA accessibility
59
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
359
transcription factor
230
histone
230
histone modification
120
broad histone mark
118
control
110
narrow histone mark
88
recombinant protein
73
RNA binding protein
25
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
314
November, 2017
227
May, 2021
148
May, 2020
144
February, 2021
134
May, 2022
94
February, 2023
64
October, 2019
59
November, 2018
59
September, 2020
55
June, 2019
48
August, 2021
48
July, 2018
47
August, 2017
43
April, 2018
41
September, 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
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
1134
bam
1079
bigWig
779
fastq
655
bed narrowPeak
452
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
120
tagAlign
108
bed broadPeak
108
bigBed broadPeak
40
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
1689
Homo sapiens
Biosample type
2711
tissue
1044
primary cell
649
cell line
388
in vitro differentiated cells
10
stem cell
Organ
464
epithelium
402
liver
394
pancreas
103
vasculature
97
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
1153
AMP
324
HPAP
213
T1D
2
community
1
ITG
Genome assembly (visualization)
1102
hg19
951
GRCh38
Lab
1082
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
31
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
missing controlled_by
Audit category:
26
inconsistent control read length
3
inconsistent assembly
3
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
BIOSAMPLE
ASSAY
1693 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
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 93 more…
cell line
HepG2
365
14
1
1
2
2
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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