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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
411
ChIP-seq
110
total RNA-seq
28
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
411
DNA binding
110
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
316
transcription factor
89
recombinant protein
81
control
60
RNA binding protein
26
chromatin remodeller
12
histone
12
histone modification
7
narrow histone mark
5
broad histone mark
3
nucleotide modification
1
other context
1
other post-translational modification
Date released
257
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
29
October, 2019
28
December, 2018
23
January, 2019
20
May, 2021
November, 2019
8
March, 2020
6
November, 2020
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
563
bam
506
bigWig
427
fastq
390
bed narrowPeak
355
bigBed narrowPeak
116
tsv
59
bed broadPeak
bigBed broadPeak
20
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
574
Homo sapiens
Biosample type
2464
tissue
576
cell line
510
primary cell
388
in vitro differentiated cells
8
stem cell
Organ
343
liver
71
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
59
epithelium
19
kidney
8
embryo
1
mammary gland
Project
576
AMP
9
T1D
2
community
Genome assembly (visualization)
453
hg19
402
GRCh38
Lab
536
AMP-T2D consortium
34
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:
13
missing controlled_by
Audit category:
13
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
month_released!
November, 2019
files.file_type!
bigBed broadPeak
BIOSAMPLE
ASSAY
576 results
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ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
320
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
EndoC_BH1
30
18
6
2
1
Panc1
13
1
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