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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
650
ChIP-seq
122
total RNA-seq
33
ATAC-seq
6
pCHi-C
4
GRO-seq
4
STARR-seq
3
DNase-seq
2
Capture-C
2
Hi-C
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
650
DNA binding
124
Transcription
36
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
399
transcription factor
136
histone
136
histone modification
110
control
82
recombinant protein
75
RNA binding protein
69
broad histone mark
66
narrow histone mark
33
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
83
August, 2021
78
February, 2021
68
August, 2017
64
May, 2021
61
November, 2018
39
December, 2017
39
February, 2018
28
December, 2018
23
January, 2019
18
October, 2019
February, 2023
5
January, 2018
5
March, 2020
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
710
bam
627
bigWig
564
fastq
501
bed narrowPeak
372
bigBed narrowPeak
121
tsv
60
bed broadPeak
60
bigBed broadPeak
57
tagAlign
23
bed bed3+
4
bed bedgraph
3
tar
2
bedpe bed3+
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
828
Homo sapiens
Biosample type
2590
tissue
950
primary cell
563
cell line
268
in vitro differentiated cells
9
stem cell
Organ
416
liver
84
connective tissue
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
31
embryo
21
epithelium
17
pancreas
4
kidney
1
adipose tissue
1
mammary gland
Project
829
AMP
2
community
Genome assembly (visualization)
649
hg19
572
GRCh38
4
hg18
Lab
745
AMP-T2D consortium
47
Kyle Gaulton, UCSD
33
Bing Ren, UCSD
4
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:
19
missing controlled_by
Audit category:
42
inconsistent control read length
8
inconsistent control run_type
inconsistent assembly
audit.ERROR.category!
inconsistent ontology term
audit.WARNING.category!
inconsistent assembly
month_released!
February, 2023
BIOSAMPLE
ASSAY
831 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
GRO-seq
STARR-seq
DNase-seq
Capture-C
Hi-C
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
H1-hESC
8
+ See 8 more…
in vitro differentiated cells
adipocyte
67
4
7
1
1
embryonic stem cell
40
7
5
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
hepatocyte
15
+ See 15 more…
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