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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
406
ChIP-seq
96
total RNA-seq
28
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
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
406
DNA binding
98
Transcription
30
DNA accessibility
3
3D chromatin structure
Target of assay
299
transcription factor
89
recombinant protein
73
control
54
RNA binding protein
34
histone
34
histone modification
20
chromatin remodeller
18
broad histone mark
16
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
45
November, 2018
August, 2021
30
October, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
5
January, 2019
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
513
bam
444
bigWig
366
fastq
336
bed narrowPeak
301
bigBed narrowPeak
102
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bedpe bed3+
1
hdf5
1
hic
1
txt
Organism
552
Homo sapiens
Biosample type
2521
tissue
1029
primary cell
556
cell line
352
in vitro differentiated cells
10
stem cell
Organ
369
liver
90
pancreas
77
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
bodily fluid
17
kidney
1
mammary gland
Project
545
AMP
9
T1D
2
community
Genome assembly (visualization)
452
hg19
401
GRCh38
Lab
543
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 replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
WGBS
month_released!
August, 2021
organ_slims!
bodily fluid
BIOSAMPLE
ASSAY
556 results
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ChIP-seq
total RNA-seq
ATAC-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
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
360
5
1
2
1
EndoC_BH1
15
33
19
6
3
1
2
1
smooth muscle cell of the coronary artery
6
52
8
Panc1
13
1
1
RCC 7860 HIF1a re-expression
4
1
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