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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
622
ChIP-seq
249
total RNA-seq
71
ATAC-seq
11
pCHi-C
8
Hi-C
6
MeRIP-seq
5
STARR-seq
4
Capture-C
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
3
DNase-seq
2
HiChIP
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
622
DNA binding
253
Transcription
74
DNA accessibility
8
3D chromatin structure
1
DNA sequencing
Target of assay
353
transcription factor
150
histone
150
histone modification
117
control
75
broad histone mark
74
narrow histone mark
73
recombinant protein
55
RNA binding protein
26
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
153
May, 2021
122
February, 2021
86
August, 2021
68
August, 2017
November, 2018
43
December, 2017
39
February, 2018
38
October, 2019
28
December, 2018
23
January, 2019
22
February, 2023
21
November, 2019
19
March, 2020
6
November, 2020
5
January, 2018
2
December, 2019
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
812
bam
724
bigWig
507
fastq
480
bed narrowPeak
316
bigBed narrowPeak
250
tsv
60
bed broadPeak
60
bigBed broadPeak
60
tagAlign
28
bed bed3+
9
bedpe bed3+
7
bed bedgraph
6
bed bed3
6
hic
4
txt
3
tar
2
ibed
1
hdf5
1
vcf
Organism
991
Homo sapiens
Biosample type
2629
tissue
1087
primary cell
601
cell line
394
in vitro differentiated cells
10
stem cell
Organ
370
liver
103
epithelium
97
connective tissue
95
pancreas
67
heart
66
artery
66
blood vessel
66
vasculature
46
blood
46
bodily fluid
37
embryo
19
kidney
1
adipose tissue
1
mammary gland
Project
984
AMP
9
T1D
2
community
Genome assembly (visualization)
773
hg19
672
GRCh38
4
hg18
Lab
894
AMP-T2D consortium
52
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
207
inconsistent ontology term
2
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
16
missing controlled_by
Audit category:
38
inconsistent control read length
4
inconsistent control run_type
1
inconsistent assembly
month_released!
November, 2018
organ_slims!
limb
BIOSAMPLE
ASSAY
995 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
MeRIP-seq
STARR-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
DNase-seq
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
333
14
1
2
2
2
1
EndoC_BH1
15
33
19
1
6
2
3
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
45
1
Panc1
13
1
1
+ See 14 more…
in vitro differentiated cells
adipocyte
67
5
8
1
1
cardiomyocytes
3
59
embryonic stem cell
40
7
6
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
+ See 31 more…
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