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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
456
ChIP-seq
79
total RNA-seq
10
ATAC-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
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
456
DNA binding
81
Transcription
11
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
360
transcription factor
89
recombinant protein
78
control
64
RNA binding protein
30
chromatin remodeller
26
histone
26
histone modification
broad histone mark
13
narrow histone mark
2
other context
2
other post-translational modification
Date released
307
November, 2017
70
February, 2021
61
November, 2018
41
August, 2021
28
December, 2018
24
October, 2019
23
January, 2019
6
March, 2020
5
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
519
bam
460
bigWig
419
fastq
378
bed narrowPeak
344
bigBed narrowPeak
84
tsv
51
bed broadPeak
51
bigBed broadPeak
14
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
567
Homo sapiens
Biosample type
2458
tissue
591
primary cell
570
cell line
321
in vitro differentiated cells
9
stem cell
Organ
392
liver
82
pancreas
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
563
AMP
5
T1D
2
community
Genome assembly (visualization)
466
hg19
405
GRCh38
Lab
530
AMP-T2D consortium
33
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:
20
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
lab.title!
Stephen Parker, UMich
target.investigated_as!
broad histone mark
organ_slims!
epithelium
BIOSAMPLE
ASSAY
570 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
369
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
9
1
1
H1-hESC
8
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