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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
123
ChIP-seq
35
total RNA-seq
20
ATAC-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
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
123
DNA binding
37
Transcription
20
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
80
control
28
transcription factor
18
histone
18
histone modification
9
broad histone mark
9
narrow histone mark
8
recombinant protein
4
RNA binding protein
3
nucleotide modification
Date released
February, 2021
66
November, 2017
44
August, 2021
22
October, 2019
21
May, 2021
16
November, 2019
11
March, 2020
8
January, 2019
6
February, 2023
6
November, 2020
5
November, 2018
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
487
bam
439
bigWig
427
fastq
390
bed narrowPeak
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
41
tsv
12
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
207
Homo sapiens
Biosample type
1631
tissue
931
primary cell
351
in vitro differentiated cells
211
cell line
10
stem cell
Organ
106
liver
59
pancreas
52
epithelium
18
kidney
8
embryo
7
blood
7
bodily fluid
1
mammary gland
Project
200
AMP
9
T1D
2
community
Genome assembly (visualization)
86
hg19
49
GRCh38
Lab
164
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
66
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
month_released!
February, 2021
files.file_type!
bigBed narrowPeak
BIOSAMPLE
ASSAY
211 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
STARR-seq
pCHi-C
Hi-C
CRISPR genome editing followed by DNA sequencing
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
85
14
2
1
2
1
1
EndoC_BH1
15
7
19
6
1
3
2
2
1
H1-hESC
8
Panc1
7
1
GM12878
6
1
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