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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
122
ATAC-seq
104
total RNA-seq
87
single cell RNA-seq
56
snATAC-seq
47
WGBS
22
pCHi-C
10
RRBS
9
ChIP-seq
9
Hi-C
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
193
Transcription
180
DNA accessibility
58
DNA methylation
9
3D chromatin structure
9
DNA binding
1
DNA sequencing
Target of assay
7
control
4
histone
4
histone modification
3
nucleotide modification
2
broad histone mark
2
narrow histone mark
1
transcription factor
Date released
134
May, 2022
94
February, 2023
58
May, 2020
56
September, 2020
46
February, 2021
38
May, 2021
22
August, 2021
9
July, 2019
8
January, 2021
6
November, 2020
5
March, 2020
4
October, 2022
3
March, 2023
3
October, 2019
1
August, 2017
1
December, 2018
1
November, 2017
1
November, 2018
1
November, 2019
1
September, 2018
Available data
bam
bigWig
836
fastq
699
bed narrowPeak
464
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
120
tagAlign
108
bed broadPeak
108
bigBed broadPeak
40
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
4
tar
3
cool
2
bed bed3
2
csv
1
txt
1
vcf
Organism
488
Homo sapiens
Biosample type
782
tissue
430
primary cell
87
in vitro differentiated cells
62
cell line
6
stem cell
Organ
178
epithelium
168
pancreas
22
liver
9
kidney
8
blood
8
bodily fluid
3
vasculature
2
blood vessel
2
connective tissue
2
vein
1
bone element
1
bone marrow
1
brain
1
eye
1
heart
1
mammary gland
1
musculature of body
Project
314
HPAP
146
AMP
29
T1D
2
community
1
ITG
Genome assembly (visualization)
18
hg19
1
GRCh38
Lab
314
Klaus Kaestner, Upenn
120
AMP-T2D consortium
29
Kyle Gaulton, UCSD
20
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
37
inconsistent ontology term
31
audit script error
files.file_type!
bigWig
bam
BIOSAMPLE
ASSAY
492 results
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Clear Filters
ATAC-seq
total RNA-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
RRBS
ChIP-seq
Hi-C
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNAme array
MPRA
shRNA RNA-seq
siRNA RNA-seq
...and 1 more
primary cell
Langerhans cell
85
48
pancreatic alpha cell
22
42
31
1
pancreatic beta cell
13
11
16
1
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
22
1
1
2
+ See 36 more…
cell line
EndoC_BH1
16
1
6
3
2
2
1
HepG2
9
2
5
2
2
EndoC-BH1
1
1
HEK293T
2
MCF-7
1
+ See 5 more…
See all biosamples
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