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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
120
ChIP-seq
19
ATAC-seq
6
MeRIP-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
120
DNA binding
19
DNA accessibility
2
3D chromatin structure
2
Transcription
Target of assay
79
control
41
transcription factor
6
RNA binding protein
3
histone
3
histone modification
3
nucleotide modification
2
broad histone mark
2
chromatin remodeller
1
narrow histone mark
1
recombinant protein
Date released
98
November, 2017
August, 2021
16
May, 2021
10
October, 2019
6
February, 2023
6
March, 2020
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
May, 2020
1
October, 2022
Available data
119
bam
106
fastq
54
bigWig
32
bed narrowPeak
32
bigBed narrowPeak
14
bed broadPeak
14
bigBed broadPeak
6
tagAlign
6
tsv
3
tar
1
bed bed3+
1
bedpe bed3+
1
hic
1
txt
Organism
158
Homo sapiens
Biosample type
748
tissue
551
primary cell
162
cell line
117
in vitro differentiated cells
7
stem cell
Organ
102
liver
35
pancreas
28
epithelium
7
blood
7
bodily fluid
5
kidney
2
artery
2
blood vessel
2
heart
2
vasculature
1
mammary gland
Project
155
AMP
5
T1D
2
community
Genome assembly (visualization)
507
hg19
GRCh38
Lab
149
AMP-T2D consortium
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
assembly!
GRCh38
month_released!
August, 2021
organ_slims!
ovary
BIOSAMPLE
ASSAY
162 results
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ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
99
2
1
EndoC_BH1
2
18
6
3
1
2
1
GM12878
6
1
Panc1
7
EndoC-BH1
1
1
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