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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
404
ChIP-seq
113
total RNA-seq
28
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
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
404
DNA binding
115
Transcription
30
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
305
transcription factor
89
recombinant protein
73
control
55
RNA binding protein
26
histone
26
histone modification
20
chromatin remodeller
13
broad histone mark
13
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
303
November, 2017
88
February, 2021
46
November, 2018
43
August, 2021
29
October, 2019
21
May, 2021
15
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
5
January, 2019
2
March, 2023
1
May, 2020
1
October, 2022
Available data
522
bam
466
bigWig
366
fastq
350
bed narrowPeak
301
bigBed narrowPeak
119
tsv
59
bed broadPeak
59
bigBed broadPeak
tagAlign
3
tar
2
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
573
Homo sapiens
Biosample type
2523
tissue
970
primary cell
577
cell line
350
in vitro differentiated cells
10
stem cell
Organ
387
liver
90
pancreas
78
epithelium
blood
61
bodily fluid
60
artery
60
blood vessel
60
heart
60
vasculature
19
kidney
8
embryo
1
mammary gland
Project
566
AMP
9
T1D
2
community
Genome assembly (visualization)
455
hg19
395
GRCh38
Lab
531
AMP-T2D consortium
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
91
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
assay_title!
Hi-C
files.file_type!
tagAlign
organ_slims!
blood
BIOSAMPLE
ASSAY
577 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
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
366
14
1
2
2
1
1
EndoC_BH1
15
33
19
6
3
2
2
1
smooth muscle cell of the coronary artery
52
8
Panc1
13
1
H1-hESC
8
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