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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
485
ChIP-seq
111
total RNA-seq
29
ATAC-seq
10
pCHi-C
6
MeRIP-seq
5
STARR-seq
4
Hi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
GRO-seq
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
485
DNA binding
111
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
84
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
20
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
20
May, 2021
16
November, 2019
12
March, 2020
6
November, 2020
3
December, 2017
2
January, 2018
1
February, 2023
1
May, 2020
1
October, 2022
Available data
581
bam
521
bigWig
431
fastq
404
bed narrowPeak
355
bigBed narrowPeak
121
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
6
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
657
Homo sapiens
Biosample type
2558
tissue
651
cell line
559
primary cell
394
in vitro differentiated cells
8
stem cell
Organ
401
liver
88
pancreas
75
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
19
kidney
8
embryo
1
connective tissue
1
mammary gland
Project
659
AMP
9
T1D
4
community
Genome assembly (visualization)
529
hg19
463
GRCh38
1
hg18
Lab
619
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
89
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
28
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
organ_slims!
limb
BIOSAMPLE
ASSAY
659 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
MeRIP-seq
STARR-seq
Hi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
GRO-seq
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
EndoC_BH1
13
31
19
6
1
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
+ See 13 more…
stem cell
hESC
3
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
trophoblast
1
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