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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
463
ChIP-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
DNase-seq
2
HiChIP
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
Assay category
463
DNA binding
Transcription
31
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
347
transcription factor
89
recombinant protein
79
control
63
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
312
November, 2017
61
November, 2018
28
December, 2018
August, 2021
26
October, 2019
18
February, 2021
18
January, 2019
17
May, 2021
15
November, 2019
7
March, 2020
6
November, 2020
5
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
478
bam
422
fastq
404
bigWig
390
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
6
tsv
3
bed bed3+
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
515
Homo sapiens
Biosample type
1477
tissue
647
primary cell
516
cell line
221
in vitro differentiated cells
8
stem cell
Organ
362
liver
61
blood
61
bodily fluid
56
pancreas
42
epithelium
14
artery
14
blood vessel
14
heart
14
vasculature
13
kidney
1
mammary gland
Project
509
AMP
7
T1D
Genome assembly (visualization)
408
hg19
360
GRCh38
Lab
505
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
53
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_slims!
Transcription
assay_title!
CRISPR genome editing followed by sgRNA sequencing
files.file_type!
tar
month_released!
August, 2021
BIOSAMPLE
ASSAY
516 results
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ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
DNase-seq
HiChIP
MPRA
WGBS
cell line
HepG2
357
1
2
1
1
GM12878
60
1
EndoC_BH1
15
19
6
3
1
2
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
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