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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
56
ChIP-seq
30
total RNA-seq
20
ATAC-seq
5
STARR-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
3
MeRIP-seq
2
Capture-C
2
DNase-seq
2
HiChIP
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
56
DNA binding
32
Transcription
22
DNA accessibility
3
3D chromatin structure
1
DNA sequencing
Target of assay
22
histone
22
histone modification
19
transcription factor
18
control
11
broad histone mark
11
narrow histone mark
7
recombinant protein
nucleotide modification
2
RNA binding protein
Date released
February, 2021
44
August, 2021
30
October, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
3
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
487
bam
439
bigWig
fastq
390
bed narrowPeak
355
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
132
Homo sapiens
Biosample type
1853
tissue
676
primary cell
227
in vitro differentiated cells
136
cell line
6
stem cell
Organ
63
pancreas
50
epithelium
32
liver
19
kidney
8
embryo
1
blood
1
bodily fluid
1
mammary gland
Project
125
AMP
9
T1D
2
community
Genome assembly (visualization)
70
hg19
51
GRCh38
Lab
92
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
63
inconsistent ontology term
Audit category:
1
inconsistent assembly
files.file_type!
fastq
month_released!
February, 2021
target.investigated_as!
nucleotide modification
BIOSAMPLE
ASSAY
136 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
MeRIP-seq
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
15
7
19
3
1
3
2
2
1
HepG2
18
9
2
1
1
1
Panc1
13
1
1
H1-hESC
8
RCC 7860 HIF1a re-expression
4
1
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