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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
350
ChIP-seq
108
total RNA-seq
28
ATAC-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
350
DNA binding
110
Transcription
30
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
310
transcription factor
89
recombinant protein
control
55
RNA binding protein
37
histone
37
histone modification
20
chromatin remodeller
19
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
259
November, 2017
93
February, 2021
46
November, 2018
40
August, 2021
21
May, 2021
21
October, 2019
14
November, 2019
11
March, 2020
6
February, 2023
January, 2019
3
November, 2020
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
449
bigWig
447
bam
350
bed narrowPeak
306
fastq
301
bigBed narrowPeak
114
tsv
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
515
Homo sapiens
Biosample type
2584
tissue
1045
primary cell
519
cell line
357
in vitro differentiated cells
9
stem cell
Organ
336
liver
81
pancreas
74
epithelium
64
artery
64
blood vessel
64
heart
64
vasculature
40
blood
bodily fluid
16
kidney
8
embryo
1
mammary gland
Project
508
AMP
9
T1D
2
community
Genome assembly (visualization)
457
hg19
405
GRCh38
Lab
479
AMP-T2D consortium
30
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
84
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
month_released!
January, 2019
organ_slims!
bodily fluid
target.investigated_as!
control
BIOSAMPLE
ASSAY
519 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
318
9
1
2
2
2
1
1
EndoC_BH1
13
33
19
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
52
8
Panc1
7
1
1
H1-hESC
8
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