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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
484
ChIP-seq
27
ATAC-seq
6
MeRIP-seq
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
pCHi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
484
DNA binding
29
DNA accessibility
4
3D chromatin structure
2
Transcription
1
DNA methylation
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
83
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
28
December, 2018
26
August, 2021
26
October, 2019
18
January, 2019
17
February, 2021
17
May, 2021
15
November, 2019
6
February, 2023
6
November, 2020
2
March, 2020
2
March, 2023
1
January, 2018
1
October, 2022
Available data
582
bam
522
bigWig
427
fastq
404
bed narrowPeak
355
bigBed narrowPeak
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
Organism
537
Homo sapiens
Biosample type
1677
tissue
817
primary cell
541
cell line
258
in vitro differentiated cells
6
stem cell
Organ
384
liver
61
blood
61
bodily fluid
58
pancreas
44
epithelium
14
artery
14
blood vessel
14
heart
14
vasculature
13
kidney
Project
532
AMP
7
T1D
2
community
Genome assembly (visualization)
424
hg19
359
GRCh38
Lab
504
AMP-T2D consortium
24
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
1
inconsistent assembly
assay_slims!
DNA sequencing
files.file_type!
bed bed3
tsv
month_released!
April, 2020
BIOSAMPLE
ASSAY
541 results
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Clear Filters
ChIP-seq
ATAC-seq
MeRIP-seq
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
pCHi-C
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
378
2
2
1
1
GM12878
60
1
EndoC_BH1
15
18
6
1
3
2
2
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
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