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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
103
ChIP-seq
47
total RNA-seq
20
ATAC-seq
8
pCHi-C
6
MeRIP-seq
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
GRO-seq
1
Hi-C
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
103
DNA binding
51
Transcription
22
DNA accessibility
1
3D chromatin structure
Target of assay
60
transcription factor
22
control
22
histone
22
histone modification
11
RNA binding protein
11
broad histone mark
11
narrow histone mark
10
chromatin remodeller
7
recombinant protein
3
nucleotide modification
Date released
30
October, 2019
28
February, 2021
27
December, 2018
21
May, 2021
18
January, 2019
15
March, 2020
15
November, 2018
15
November, 2019
13
August, 2021
6
February, 2023
6
November, 2020
4
March, 2023
3
December, 2017
2
January, 2018
1
October, 2022
Available data
153
bam
137
bigWig
86
bed narrowPeak
64
fastq
62
bigBed narrowPeak
56
tsv
5
bed bed3+
2
tagAlign
1
bed broadPeak
bedpe bed3+
1
bigBed broadPeak
1
hdf5
1
hic
1
txt
Organism
198
Homo sapiens
Biosample type
2334
tissue
1068
primary cell
372
in vitro differentiated cells
194
cell line
10
stem cell
Organ
liver
91
pancreas
78
epithelium
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
19
kidney
8
embryo
1
connective tissue
1
mammary gland
Project
191
AMP
9
T1D
4
community
Genome assembly (visualization)
138
hg19
135
GRCh38
1
hg18
Lab
186
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
4
Anna Gloyn, Oxford
3
Bing Ren, UCSD
Audit category:
92
inconsistent ontology term
1
inconsistent control
Audit category:
2
inconsistent control read length
1
inconsistent assembly
files.file_type!
bedpe bed3+
organ_slims!
artery
liver
BIOSAMPLE
ASSAY
204 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
MeRIP-seq
CRISPR genome editing followed by DNA sequencing
STARR-seq
Capture-C
DNase-seq
HiChIP
CRISPR RNA-seq
CRISPR genome editing followed by sgRNA sequencing
CRISPRi RNA-seq
GRO-seq
Hi-C
MPRA
shRNA RNA-seq
siRNA RNA-seq
cell line
EndoC_BH1
15
33
19
6
3
2
2
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
RCC 7860 HIF1a re-expression
4
1
+ See 12 more…
stem cell
hESC
3
1
SB Ad3.1
1
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
+ See 1 more…
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