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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
71
ChIP-seq
44
ATAC-seq
18
total RNA-seq
11
pCHi-C
8
Hi-C
6
MeRIP-seq
5
STARR-seq
4
Capture-C
4
GRO-seq
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
71
DNA binding
44
DNA accessibility
22
Transcription
8
3D chromatin structure
1
DNA sequencing
Target of assay
36
histone
36
histone modification
24
transcription factor
20
broad histone mark
16
narrow histone mark
14
control
6
RNA binding protein
3
nucleotide modification
Date released
63
May, 2021
41
August, 2021
17
February, 2023
14
August, 2017
12
March, 2020
6
November, 2020
5
February, 2021
5
January, 2018
5
October, 2019
2
December, 2019
2
March, 2023
1
August, 2018
1
December, 2018
1
May, 2020
1
November, 2017
1
November, 2019
1
October, 2022
Available data
bam
777
bigWig
568
fastq
534
bed narrowPeak
372
bigBed narrowPeak
248
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
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
174
Homo sapiens
Biosample type
841
tissue
455
primary cell
103
in vitro differentiated cells
75
cell line
7
stem cell
Organ
38
connective tissue
35
liver
29
pancreas
28
epithelium
4
kidney
1
adipose tissue
1
blood
1
bodily fluid
1
embryo
1
mammary gland
Project
176
AMP
T1D
2
community
Genome assembly (visualization)
54
hg19
4
hg18
1
GRCh38
Lab
82
AMP-T2D consortium
47
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:
44
inconsistent ontology term
2
audit script error
Audit category:
1
inconsistent assembly
award.project!
T1D
files.file_type!
bam
BIOSAMPLE
ASSAY
178 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
pCHi-C
Hi-C
MeRIP-seq
STARR-seq
Capture-C
GRO-seq
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
in vitro differentiated cells
embryonic stem cell
37
6
5
1
adipocyte
14
8
1
1
cardiomyocytes (cardiac muscle cell)
2
2
2
chondrocyte
5
immature adipocyte
2
2
+ See 12 more…
cell line
HepG2
19
9
2
2
2
1
EndoC_BH1
18
1
6
2
1
EndoC-BH1
1
1
HEK293T
2
GM12878
1
+ See 7 more…
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