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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
617
ChIP-seq
124
total RNA-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
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
617
DNA binding
126
Transcription
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
399
transcription factor
136
histone
136
histone modification
110
control
82
recombinant protein
75
RNA binding protein
69
broad histone mark
66
narrow histone mark
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
71
August, 2021
65
August, 2017
65
February, 2021
59
May, 2021
54
November, 2018
39
February, 2018
38
December, 2017
26
December, 2018
17
January, 2019
15
October, 2019
8
February, 2023
5
March, 2020
4
January, 2018
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
655
bam
582
bigWig
530
fastq
444
bed narrowPeak
336
bigBed narrowPeak
121
tsv
57
tagAlign
54
bed broadPeak
54
bigBed broadPeak
23
bed bed3+
3
tar
2
bedpe bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
767
Homo sapiens
Biosample type
2216
tissue
760
primary cell
528
cell line
243
in vitro differentiated cells
9
stem cell
Organ
394
liver
75
connective tissue
59
heart
58
artery
58
blood vessel
58
vasculature
50
blood
50
bodily fluid
31
embryo
20
epithelium
18
pancreas
3
kidney
1
adipose tissue
1
mammary gland
Project
764
AMP
5
T1D
2
community
Genome assembly (visualization)
581
hg19
520
GRCh38
4
hg18
Lab
687
AMP-T2D consortium
47
Kyle Gaulton, UCSD
33
Bing Ren, UCSD
2
Anna Gloyn, Oxford
2
Struan F.A. Grant, CHOP
Audit category:
inconsistent ontology term
2
audit script error
Audit category:
13
missing controlled_by
Audit category:
29
inconsistent control read length
1
inconsistent assembly
assay_slims!
DNA accessibility
audit.ERROR.category!
inconsistent ontology term
target.investigated_as!
chromatin remodeller
BIOSAMPLE
ASSAY
771 results
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ChIP-seq
total RNA-seq
pCHi-C
GRO-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
358
14
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
GM12878
50
Panc1
13
1
H1-hESC
8
+ See 9 more…
in vitro differentiated cells
adipocyte
65
5
1
embryonic stem cell
40
7
1
neural progenitor cell
21
7
pancreatic endoderm
18
4
1
hepatocyte
14
+ See 16 more…
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