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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
443
ChIP-seq
100
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
443
DNA binding
102
Transcription
29
DNA accessibility
2
3D chromatin structure
1
DNA methylation
Target of assay
343
transcription factor
82
recombinant protein
70
control
64
RNA binding protein
30
chromatin remodeller
28
histone
28
histone modification
14
broad histone mark
14
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
95
February, 2021
61
November, 2018
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
10
August, 2021
7
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
October, 2022
Available data
553
bam
488
bigWig
427
fastq
375
bed narrowPeak
347
bigBed narrowPeak
101
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
Organism
588
Homo sapiens
Biosample type
2510
tissue
1037
primary cell
592
cell line
381
in vitro differentiated cells
6
stem cell
Organ
368
liver
77
epithelium
77
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
8
embryo
Project
581
AMP
9
T1D
2
community
Genome assembly (visualization)
494
hg19
444
GRCh38
Lab
579
AMP-T2D consortium
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
76
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
assay_title!
pCHi-C
lab.title!
Bing Ren, UCSD
month_released!
October, 2019
BIOSAMPLE
ASSAY
592 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
360
5
1
1
1
EndoC_BH1
15
33
19
6
3
2
1
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
H1-hESC
8
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