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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
467
ChIP-seq
104
total RNA-seq
29
ATAC-seq
10
pCHi-C
6
MeRIP-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
GRO-seq
1
MPRA
1
WGBS
Assay category
467
DNA binding
104
Transcription
31
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
350
transcription factor
89
recombinant protein
80
control
64
RNA binding protein
37
histone
37
histone modification
30
chromatin remodeller
19
broad histone mark
18
narrow histone mark
3
nucleotide modification
other context
2
other post-translational modification
Date released
313
November, 2017
96
February, 2021
61
November, 2018
30
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
15
March, 2020
10
August, 2021
6
February, 2023
6
November, 2020
3
December, 2017
2
January, 2018
1
May, 2020
1
October, 2022
Available data
583
bam
509
bigWig
429
fastq
390
bed narrowPeak
353
bigBed narrowPeak
114
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
6
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
630
Homo sapiens
Biosample type
2770
tissue
1088
primary cell
624
cell line
394
in vitro differentiated cells
8
stem cell
Organ
368
liver
92
pancreas
79
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
17
kidney
8
embryo
1
connective tissue
1
mammary gland
Project
623
AMP
9
T1D
Genome assembly (visualization)
516
hg19
465
GRCh38
1
hg18
Lab
621
AMP-T2D consortium
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Anna Gloyn, Oxford
Audit category:
92
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
lab.title!
Anna Gloyn, Oxford
Bing Ren, UCSD
target.investigated_as!
other context
BIOSAMPLE
ASSAY
632 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
MeRIP-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
GRO-seq
MPRA
WGBS
cell line
HepG2
358
5
1
2
1
1
EndoC_BH1
15
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
+ See 11 more…
stem cell
hESC
3
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
trophoblast
1
See all biosamples
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