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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
440
ChIP-seq
96
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
DNase-seq
2
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
440
DNA binding
98
Transcription
31
DNA accessibility
2
3D chromatin structure
1
DNA methylation
Target of assay
335
transcription factor
88
recombinant protein
79
control
58
RNA binding protein
24
histone
24
histone modification
19
chromatin remodeller
12
broad histone mark
12
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
294
November, 2017
96
February, 2021
56
November, 2018
August, 2021
29
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
548
bam
474
bigWig
401
fastq
366
bed narrowPeak
331
bigBed narrowPeak
102
tsv
46
bed broadPeak
46
bigBed broadPeak
9
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
hdf5
1
hic
1
txt
Organism
587
Homo sapiens
Biosample type
2542
tissue
1075
primary cell
591
cell line
335
in vitro differentiated cells
8
stem cell
Organ
344
liver
89
pancreas
77
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
17
kidney
1
mammary gland
Project
580
AMP
9
T1D
2
community
Genome assembly (visualization)
480
hg19
433
GRCh38
Lab
578
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
89
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
8
missing controlled_by
Audit category:
inconsistent control read length
8
inconsistent control run_type
audit.WARNING.category!
inconsistent control read length
files.file_type!
hdf5
month_released!
August, 2021
BIOSAMPLE
ASSAY
591 results
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ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
DNase-seq
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
334
5
1
2
1
1
EndoC_BH1
15
33
19
6
3
1
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
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