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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
392
ChIP-seq
104
total RNA-seq
29
ATAC-seq
10
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
3
MeRIP-seq
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
GRO-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
392
DNA binding
108
Transcription
31
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
350
transcription factor
89
recombinant protein
control
64
RNA binding protein
37
histone
37
histone modification
30
chromatin remodeller
19
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
259
November, 2017
93
February, 2021
58
November, 2018
28
December, 2018
21
May, 2021
21
October, 2019
20
January, 2019
15
March, 2020
14
November, 2019
10
August, 2021
6
February, 2023
4
March, 2023
3
November, 2020
2
December, 2017
2
January, 2018
1
May, 2020
1
October, 2022
Available data
508
bam
498
bigWig
392
bed narrowPeak
368
fastq
355
bigBed narrowPeak
114
tsv
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
5
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
552
Homo sapiens
Biosample type
2586
tissue
1053
primary cell
549
cell line
357
in vitro differentiated cells
9
stem cell
Organ
314
liver
81
pancreas
74
epithelium
64
artery
64
blood vessel
64
heart
64
vasculature
55
blood
55
bodily fluid
14
kidney
8
embryo
1
connective tissue
1
mammary gland
Project
545
AMP
9
T1D
4
community
Genome assembly (visualization)
504
hg19
466
GRCh38
1
hg18
Lab
546
AMP-T2D consortium
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
4
Anna Gloyn, Oxford
3
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
84
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!
Bing Ren, UCSD
target.investigated_as!
control
BIOSAMPLE
ASSAY
558 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
MeRIP-seq
Capture-C
DNase-seq
HiChIP
CRISPR RNA-seq
CRISPR genome editing followed by sgRNA sequencing
CRISPRi RNA-seq
GRO-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
304
5
1
2
1
1
EndoC_BH1
13
33
19
3
1
3
2
2
1
smooth muscle cell of the coronary artery
4
52
8
GM12878
54
1
Panc1
7
1
1
+ See 12 more…
stem cell
hESC
2
1
SB Ad3.1
1
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
+ See 1 more…
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