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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
70
ChIP-seq
17
ATAC-seq
9
total RNA-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
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
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
70
DNA binding
17
DNA accessibility
11
Transcription
3
3D chromatin structure
1
DNA sequencing
Target of assay
67
control
5
transcription factor
3
nucleotide modification
2
RNA binding protein
1
broad histone mark
1
histone
1
histone modification
1
recombinant protein
Date released
47
November, 2017
22
August, 2021
16
May, 2021
February, 2021
10
October, 2019
6
February, 2023
6
November, 2020
4
March, 2020
4
November, 2018
4
November, 2019
3
January, 2019
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
487
bam
bigWig
427
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
123
Homo sapiens
Biosample type
903
tissue
429
primary cell
131
in vitro differentiated cells
127
cell line
7
stem cell
Organ
67
liver
36
pancreas
29
epithelium
7
kidney
6
blood
6
bodily fluid
1
mammary gland
Project
120
AMP
5
T1D
2
community
Genome assembly (visualization)
3
hg19
1
GRCh38
Lab
94
AMP-T2D consortium
20
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
34
inconsistent ontology term
Audit category:
1
missing controlled_by
month_released!
February, 2021
lab.title!
Maike Sander, UCSD
files.file_type!
bigWig
BIOSAMPLE
ASSAY
127 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
MeRIP-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
52
9
2
1
2
1
EndoC_BH1
2
17
6
3
1
2
2
1
Panc1
7
GM12878
6
EndoC-BH1
1
1
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