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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
366
ChIP-seq
113
total RNA-seq
28
ATAC-seq
6
MeRIP-seq
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
366
DNA binding
115
Transcription
29
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
266
transcription factor
89
recombinant protein
77
control
51
RNA binding protein
23
histone
23
histone modification
16
chromatin remodeller
12
narrow histone mark
11
broad histone mark
3
nucleotide modification
1
other context
1
other post-translational modification
Date released
257
November, 2017
95
February, 2021
46
November, 2018
44
August, 2021
29
October, 2019
21
May, 2021
16
November, 2019
7
March, 2020
6
February, 2023
6
November, 2020
5
January, 2019
2
March, 2023
1
December, 2018
1
October, 2022
Available data
522
bam
467
bigWig
367
fastq
350
bed narrowPeak
301
bigBed narrowPeak
114
tsv
59
bed broadPeak
bigBed broadPeak
20
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
532
Homo sapiens
Biosample type
2576
tissue
1014
primary cell
536
cell line
388
in vitro differentiated cells
6
stem cell
Organ
341
liver
91
pancreas
79
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
bodily fluid
17
kidney
8
embryo
Project
525
AMP
9
T1D
2
community
Genome assembly (visualization)
415
hg19
365
GRCh38
Lab
489
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
90
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
13
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
organ_slims!
bodily fluid
assay_title!
pCHi-C
files.file_type!
bigBed broadPeak
BIOSAMPLE
ASSAY
536 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
320
14
1
2
2
1
1
EndoC_BH1
15
33
19
6
1
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
Panc1
13
1
H1-hESC
8
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