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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
730
ChIP-seq
360
total RNA-seq
229
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
48
WGBS
23
pCHi-C
14
Hi-C
10
RRBS
9
DNase-seq
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
730
DNA binding
551
Transcription
295
DNA accessibility
59
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
367
transcription factor
256
histone
256
histone modification
133
broad histone mark
123
narrow histone mark
110
control
89
recombinant protein
71
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
other context
2
other post-translational modification
Date released
322
November, 2017
227
May, 2021
148
May, 2020
144
February, 2021
134
May, 2022
94
February, 2023
73
September, 2018
64
October, 2019
62
November, 2018
59
August, 2017
59
September, 2020
June, 2019
48
August, 2021
48
July, 2018
43
April, 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
1086
bigWig
834
fastq
650
bed narrowPeak
415
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
120
tagAlign
83
bed broadPeak
83
bigBed broadPeak
16
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
2609
tissue
1033
primary cell
660
cell line
394
in vitro differentiated cells
10
stem cell
Organ
465
epithelium
438
pancreas
411
liver
99
vasculature
95
blood vessel
71
heart
69
blood
69
bodily fluid
68
artery
42
kidney
22
connective tissue
22
vein
16
brain
8
embryo
3
musculature of body
2
adipose tissue
1
bone element
1
bone marrow
1
eye
1
mammary gland
1
pericardium
Project
1153
AMP
324
HPAP
213
T1D
2
community
1
ITG
Genome assembly (visualization)
1116
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:
121
inconsistent ontology term
31
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
month_released!
June, 2019
organ_slims!
thymus
target.investigated_as!
other context
BIOSAMPLE
ASSAY
1693 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
DNase-seq
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 88 more…
cell line
HepG2
376
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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