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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
642
ChIP-seq
124
total RNA-seq
42
ATAC-seq
6
pCHi-C
4
GRO-seq
4
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
DNase-seq
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
642
DNA binding
126
Transcription
45
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
391
transcription factor
136
histone
136
histone modification
110
control
82
recombinant protein
72
RNA binding protein
69
broad histone mark
66
narrow histone mark
25
chromatin remodeller
2
other context
2
other post-translational modification
Date released
311
November, 2017
83
August, 2021
78
February, 2021
68
August, 2017
64
May, 2021
57
November, 2018
39
December, 2017
39
February, 2018
28
December, 2018
23
January, 2019
19
October, 2019
17
February, 2023
5
January, 2018
5
March, 2020
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
702
bam
622
bigWig
556
fastq
494
bed narrowPeak
364
bigBed narrowPeak
121
tsv
60
bed broadPeak
60
bigBed broadPeak
57
tagAlign
26
bed bed3+
6
bed bed3
6
bed bedgraph
3
tar
3
txt
2
bedpe bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
hic
1
vcf
Organism
837
Homo sapiens
Biosample type
2686
tissue
1033
primary cell
562
cell line
279
in vitro differentiated cells
9
stem cell
Organ
408
liver
93
connective tissue
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
31
embryo
22
epithelium
19
pancreas
4
kidney
1
adipose tissue
1
mammary gland
Project
834
AMP
5
T1D
2
community
Genome assembly (visualization)
651
hg19
567
GRCh38
4
hg18
Lab
748
AMP-T2D consortium
52
Kyle Gaulton, UCSD
33
Bing Ren, UCSD
6
Struan F.A. Grant, CHOP
2
Anna Gloyn, Oxford
Audit category:
inconsistent ontology term
2
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
42
inconsistent control read length
inconsistent control run_type
1
inconsistent assembly
audit.ERROR.category!
inconsistent ontology term
audit.WARNING.category!
inconsistent control run_type
BIOSAMPLE
ASSAY
841 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
GRO-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
DNase-seq
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
370
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
+ See 9 more…
in vitro differentiated cells
adipocyte
67
5
8
1
1
embryonic stem cell
40
7
6
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
hepatocyte
15
+ See 18 more…
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