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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
453
ChIP-seq
31
total RNA-seq
20
ATAC-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
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
453
DNA binding
33
Transcription
20
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
349
transcription factor
82
recombinant protein
71
control
65
RNA binding protein
31
histone
31
histone modification
30
chromatin remodeller
16
narrow histone mark
15
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
February, 2021
61
November, 2018
44
August, 2021
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
458
bam
427
fastq
419
bigWig
375
bed narrowPeak
347
bigBed narrowPeak
58
bed broadPeak
58
bigBed broadPeak
37
tsv
12
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
532
Homo sapiens
Biosample type
1706
tissue
947
primary cell
536
cell line
292
in vitro differentiated cells
10
stem cell
Organ
399
liver
61
blood
61
bodily fluid
51
epithelium
51
pancreas
8
embryo
4
kidney
1
mammary gland
Project
525
AMP
9
T1D
2
community
Genome assembly (visualization)
417
hg19
352
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:
53
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
month_released!
August, 2017
February, 2021
October, 2019
BIOSAMPLE
ASSAY
536 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
1
2
1
1
GM12878
60
1
EndoC_BH1
15
7
19
6
3
1
2
2
1
H1-hESC
8
EndoC-BH1
1
1
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