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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
474
ChIP-seq
109
total RNA-seq
ATAC-seq
6
MeRIP-seq
4
Hi-C
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
474
DNA binding
111
Transcription
4
3D chromatin structure
1
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
354
transcription factor
82
recombinant protein
80
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
87
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
23
January, 2019
15
November, 2019
15
October, 2019
7
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
557
bam
507
bigWig
427
fastq
386
bed narrowPeak
354
bigBed narrowPeak
112
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
610
Homo sapiens
Biosample type
2253
tissue
852
primary cell
614
cell line
352
in vitro differentiated cells
10
stem cell
Organ
400
liver
73
pancreas
60
blood
60
bodily fluid
60
epithelium
58
artery
58
blood vessel
58
heart
58
vasculature
kidney
8
embryo
1
mammary gland
Project
603
AMP
9
T1D
2
community
Genome assembly (visualization)
505
hg19
442
GRCh38
Lab
569
AMP-T2D consortium
32
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
58
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
organ_slims!
kidney
assay_title!
ATAC-seq
BIOSAMPLE
ASSAY
614 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
Hi-C
pCHi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
2
2
1
1
EndoC_BH1
15
33
6
1
3
2
2
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
Panc1
13
1
1
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