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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
385
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
385
DNA binding
115
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
narrow histone mark
2
other context
2
other post-translational modification
Date released
252
November, 2017
93
February, 2021
58
November, 2018
38
August, 2021
28
December, 2018
20
May, 2021
19
January, 2019
18
October, 2019
10
March, 2020
10
November, 2019
6
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
490
bigWig
489
bam
386
bed narrowPeak
357
fastq
345
bigBed narrowPeak
119
tsv
53
bed broadPeak
53
bigBed broadPeak
11
tagAlign
3
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
553
Homo sapiens
Biosample type
2264
tissue
614
primary cell
557
cell line
302
in vitro differentiated cells
8
stem cell
Organ
332
liver
69
pancreas
65
epithelium
64
artery
64
blood vessel
64
heart
64
vasculature
54
blood
54
bodily fluid
16
kidney
8
embryo
1
mammary gland
Project
548
AMP
7
T1D
2
community
Genome assembly (visualization)
498
hg19
448
GRCh38
Lab
522
AMP-T2D consortium
28
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
75
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
lab.title!
Klaus Kaestner, Upenn
Rohit N. Kulkarni, M.D., Ph.D.
target.investigated_as!
control
narrow histone mark
BIOSAMPLE
ASSAY
557 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
309
14
1
2
2
2
1
1
EndoC_BH1
7
33
19
1
3
2
2
1
smooth muscle cell of the coronary artery
4
52
8
GM12878
53
1
H1-hESC
8
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