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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
401
ChIP-seq
109
total RNA-seq
28
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
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
401
DNA binding
111
Transcription
28
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
303
transcription factor
82
recombinant protein
68
control
55
RNA binding protein
30
histone
30
histone modification
20
chromatin remodeller
15
broad histone mark
15
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
46
November, 2018
42
August, 2021
October, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
5
January, 2019
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
493
bam
447
bigWig
367
fastq
335
bed narrowPeak
293
bigBed narrowPeak
115
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
565
Homo sapiens
Biosample type
2488
tissue
1046
primary cell
569
cell line
384
in vitro differentiated cells
10
stem cell
Organ
401
liver
75
epithelium
75
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
blood
61
bodily fluid
8
embryo
4
kidney
1
mammary gland
Project
558
AMP
9
T1D
2
community
Genome assembly (visualization)
455
hg19
390
GRCh38
Lab
522
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
77
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
assay_title!
Capture-C
lab.title!
KPMP
month_released!
October, 2019
organ_slims!
blood
BIOSAMPLE
ASSAY
569 results
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ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
EndoC_BH1
15
33
19
6
3
1
2
1
smooth muscle cell of the coronary artery
6
52
8
H1-hESC
8
EndoC-BH1
1
1
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