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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
443
ChIP-seq
110
total RNA-seq
27
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
443
DNA binding
110
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
360
transcription factor
89
recombinant protein
81
control
64
RNA binding protein
30
chromatin remodeller
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
300
November, 2017
96
February, 2021
61
November, 2018
41
August, 2021
28
December, 2018
23
October, 2019
22
January, 2019
20
May, 2021
8
March, 2020
November, 2019
6
November, 2020
1
February, 2023
January, 2018
1
May, 2020
1
October, 2022
Available data
540
bam
480
bigWig
411
fastq
367
bed narrowPeak
335
bigBed narrowPeak
116
tsv
45
bed broadPeak
45
bigBed broadPeak
9
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
606
Homo sapiens
Biosample type
2013
tissue
608
cell line
406
primary cell
273
in vitro differentiated cells
5
stem cell
Organ
383
liver
66
artery
66
blood vessel
66
heart
66
vasculature
65
pancreas
59
blood
59
bodily fluid
59
epithelium
19
kidney
8
embryo
1
mammary gland
Project
608
AMP
7
T1D
2
community
Genome assembly (visualization)
486
hg19
427
GRCh38
Lab
571
AMP-T2D consortium
31
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
72
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
month_released!
January, 2018
November, 2019
target.investigated_as!
histone
BIOSAMPLE
ASSAY
608 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
360
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
59
EndoC_BH1
30
18
6
2
1
H1-hESC
8
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