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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
438
ChIP-seq
75
total RNA-seq
10
ATAC-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Hi-C
2
HiChIP
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
438
DNA binding
77
Transcription
11
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
346
transcription factor
89
recombinant protein
69
control
58
RNA binding protein
24
chromatin remodeller
18
histone
18
histone modification
9
broad histone mark
9
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
70
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
January, 2019
15
October, 2019
6
March, 2020
5
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
496
bam
446
bigWig
404
fastq
368
bed narrowPeak
333
bigBed narrowPeak
80
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
544
Homo sapiens
Biosample type
2202
tissue
742
primary cell
547
cell line
391
in vitro differentiated cells
10
stem cell
Organ
396
liver
pancreas
79
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
43
blood
43
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
540
AMP
5
T1D
2
community
Genome assembly (visualization)
452
hg19
389
GRCh38
Lab
506
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
16
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
lab.title!
KPMP
month_released!
January, 2019
organ_slims!
pancreas
skeleton
BIOSAMPLE
ASSAY
547 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
9
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
42
1
H1-hESC
8
EndoC_BH1
3
2
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