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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
466
ChIP-seq
96
total RNA-seq
ATAC-seq
6
MeRIP-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
Assay category
466
DNA binding
96
Transcription
3
3D chromatin structure
2
DNA accessibility
1
DNA methylation
Target of assay
350
transcription factor
89
recombinant protein
79
control
64
RNA binding protein
35
histone
35
histone modification
30
chromatin remodeller
18
broad histone mark
17
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
87
February, 2021
61
November, 2018
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
15
November, 2019
9
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
March, 2023
1
May, 2020
1
October, 2022
Available data
564
bam
497
bigWig
427
fastq
380
bed narrowPeak
355
bigBed narrowPeak
101
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
585
Homo sapiens
Biosample type
2352
tissue
883
primary cell
587
cell line
322
in vitro differentiated cells
8
stem cell
Organ
369
liver
71
pancreas
60
blood
60
bodily fluid
58
artery
58
blood vessel
58
epithelium
58
heart
58
vasculature
17
kidney
1
mammary gland
Project
578
AMP
9
T1D
Genome assembly (visualization)
494
hg19
446
GRCh38
Lab
576
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
70
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
ATAC-seq
month_released!
March, 2023
August, 2021
BIOSAMPLE
ASSAY
587 results
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ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
cell line
HepG2
360
5
2
1
1
EndoC_BH1
15
33
6
3
1
2
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
Panc1
13
1
1
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