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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
138
ChIP-seq
18
ATAC-seq
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
pCHi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
138
DNA binding
18
DNA accessibility
3
3D chromatin structure
2
Transcription
1
DNA sequencing
Target of assay
83
control
52
transcription factor
7
RNA binding protein
6
histone
6
histone modification
3
broad histone mark
3
narrow histone mark
3
nucleotide modification
2
chromatin remodeller
1
recombinant protein
Date released
98
November, 2017
27
August, 2021
16
May, 2021
10
October, 2019
6
February, 2023
6
November, 2020
4
February, 2021
4
November, 2018
3
January, 2019
3
November, 2019
2
March, 2023
1
December, 2018
1
January, 2018
1
March, 2020
1
October, 2022
Available data
119
bam
106
fastq
68
bigWig
46
bed narrowPeak
32
bigBed narrowPeak
tsv
14
bed broadPeak
14
bigBed broadPeak
6
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3+
1
txt
1
vcf
Organism
179
Homo sapiens
Biosample type
759
tissue
534
primary cell
183
cell line
125
in vitro differentiated cells
3
stem cell
Organ
123
liver
36
pancreas
29
epithelium
7
blood
7
bodily fluid
5
kidney
2
artery
2
blood vessel
2
heart
2
vasculature
Project
176
AMP
5
T1D
2
community
Genome assembly (visualization)
425
hg19
GRCh38
Lab
145
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
32
inconsistent ontology term
Audit category:
8
missing controlled_by
Audit category:
4
inconsistent control read length
2
inconsistent control run_type
files.file_type!
tsv
assembly!
GRCh38
BIOSAMPLE
ASSAY
183 results
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Clear Filters
ChIP-seq
ATAC-seq
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
pCHi-C
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
117
2
2
1
1
EndoC_BH1
2
17
6
3
1
2
2
1
GM12878
6
1
Panc1
7
EndoC-BH1
1
1
HEK293T
2
smooth muscle cell of the coronary artery
2
MIN6
1
RCC 7860 HIF1a re-expression
1
RCC 7860 HIF2a over-expression
1
RCC 7860 vector
1
Synthesized DNA
1
iPSC derived cell line
1
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