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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
645
ChIP-seq
213
total RNA-seq
47
ATAC-seq
11
pCHi-C
7
Hi-C
5
STARR-seq
4
GRO-seq
2
DNase-seq
2
single cell RNA-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
645
DNA binding
217
Transcription
49
DNA accessibility
7
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
406
transcription factor
123
histone
123
histone modification
111
control
89
recombinant protein
73
RNA binding protein
62
broad histone mark
60
narrow histone mark
32
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
127
May, 2021
96
February, 2021
80
August, 2021
68
August, 2017
61
November, 2018
39
February, 2018
36
October, 2019
28
December, 2018
24
December, 2017
23
January, 2019
14
March, 2020
13
February, 2023
5
January, 2018
5
November, 2019
2
December, 2019
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
798
bam
706
bigWig
549
fastq
499
bed narrowPeak
357
bigBed narrowPeak
213
tsv
60
bed broadPeak
60
bigBed broadPeak
57
tagAlign
26
bed bed3+
8
bedpe bed3+
6
bed bed3
5
hic
4
bed bedgraph
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
938
Homo sapiens
Biosample type
2731
tissue
578
cell line
478
primary cell
363
in vitro differentiated cells
10
stem cell
Organ
416
liver
epithelium
93
connective tissue
91
pancreas
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
37
embryo
19
kidney
1
adipose tissue
1
mammary gland
Project
939
AMP
T1D
2
community
Genome assembly (visualization)
748
hg19
660
GRCh38
4
hg18
Lab
858
AMP-T2D consortium
47
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
Struan F.A. Grant, CHOP
2
Anna Gloyn, Oxford
Audit category:
125
inconsistent ontology term
2
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
19
missing controlled_by
Audit category:
42
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
award.project!
T1D
lab.title!
Struan F.A. Grant, CHOP
organ_slims!
epithelium
BIOSAMPLE
ASSAY
941 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
STARR-seq
GRO-seq
DNase-seq
single cell RNA-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
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in vitro differentiated cells
adipocyte
67
5
7
1
cardiomyocytes
3
59
embryonic stem cell
40
7
5
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
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