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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
617
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
617
DNA binding
126
Transcription
45
DNA accessibility
3
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
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
83
August, 2021
78
February, 2021
66
August, 2017
64
May, 2021
54
November, 2018
39
February, 2018
38
December, 2017
26
December, 2018
19
October, 2019
17
February, 2023
17
January, 2019
5
January, 2018
5
March, 2020
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
677
bam
597
bigWig
531
fastq
469
bed narrowPeak
341
bigBed narrowPeak
121
tsv
57
tagAlign
56
bed broadPeak
56
bigBed broadPeak
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
812
Homo sapiens
Biosample type
2684
tissue
1033
primary cell
540
cell line
276
in vitro differentiated cells
9
stem cell
Organ
395
liver
91
connective tissue
67
heart
66
artery
66
blood vessel
66
vasculature
51
blood
51
bodily fluid
31
embryo
21
epithelium
19
pancreas
4
kidney
1
adipose tissue
1
mammary gland
Project
809
AMP
5
T1D
2
community
Genome assembly (visualization)
626
hg19
542
GRCh38
4
hg18
Lab
723
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 replicate
Audit category:
13
missing controlled_by
Audit category:
29
inconsistent control read length
1
inconsistent assembly
audit.ERROR.category!
inconsistent ontology term
target.investigated_as!
chromatin remodeller
BIOSAMPLE
ASSAY
816 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
358
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
50
1
Panc1
13
1
1
H1-hESC
8
+ See 9 more…
in vitro differentiated cells
adipocyte
65
5
8
1
1
embryonic stem cell
40
7
6
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
hepatocyte
14
+ See 18 more…
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