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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
572
ChIP-seq
122
total RNA-seq
41
ATAC-seq
6
pCHi-C
4
GRO-seq
4
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
DNase-seq
2
HiChIP
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
572
DNA binding
124
Transcription
43
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
345
transcription factor
122
histone
122
histone modification
102
control
82
recombinant protein
63
RNA binding protein
62
broad histone mark
59
narrow histone mark
22
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
83
August, 2021
78
February, 2021
68
August, 2017
60
May, 2021
46
November, 2018
39
February, 2018
24
December, 2017
17
October, 2019
16
February, 2023
5
January, 2019
5
March, 2020
4
January, 2018
2
March, 2023
1
August, 2018
1
December, 2018
1
May, 2020
1
October, 2022
Available data
629
bam
556
bigWig
489
fastq
431
bed narrowPeak
303
bigBed narrowPeak
119
tsv
60
bed broadPeak
60
bigBed broadPeak
54
tagAlign
26
bed bed3+
6
bed bed3
6
bed bedgraph
3
tar
3
txt
2
bedpe bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
hic
1
vcf
Organism
763
Homo sapiens
Biosample type
2671
tissue
630
primary cell
506
cell line
260
in vitro differentiated cells
9
stem cell
Organ
416
liver
93
connective tissue
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
bodily fluid
31
embryo
epithelium
19
pancreas
4
kidney
1
adipose tissue
1
mammary gland
Project
759
AMP
5
T1D
2
community
Genome assembly (visualization)
585
hg19
500
GRCh38
4
hg18
Lab
673
AMP-T2D consortium
52
Kyle Gaulton, UCSD
33
Bing Ren, UCSD
6
Struan F.A. Grant, CHOP
2
Anna Gloyn, Oxford
Audit category:
inconsistent ontology term
2
audit script error
1
inconsistent replicate
Audit category:
19
missing controlled_by
Audit category:
42
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
audit.ERROR.category!
inconsistent ontology term
organ_slims!
bodily fluid
epithelium
BIOSAMPLE
ASSAY
766 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
GRO-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
DNase-seq
HiChIP
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
Panc1
13
1
1
H1-hESC
8
EndoC_BH1
3
2
+ See 7 more…
in vitro differentiated cells
adipocyte
67
5
8
1
1
embryonic stem cell
40
7
6
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
definitive endodermal cell
8
2
1
+ See 15 more…
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