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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
132
ATAC-seq
106
ChIP-seq
104
total RNA-seq
87
single cell RNA-seq
56
snATAC-seq
48
WGBS
20
pCHi-C
8
DNase-seq
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
Hi-C
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
196
DNA accessibility
193
Transcription
106
DNA binding
49
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
92
control
9
transcription factor
8
histone
8
histone modification
5
broad histone mark
4
recombinant protein
3
RNA binding protein
3
narrow histone mark
3
nucleotide modification
Date released
134
May, 2022
94
February, 2023
59
September, 2020
58
May, 2020
49
November, 2017
48
February, 2021
37
May, 2021
22
August, 2021
18
October, 2019
12
August, 2017
11
June, 2019
8
January, 2021
8
November, 2018
7
August, 2020
6
November, 2020
4
March, 2020
3
January, 2019
3
March, 2023
2
November, 2019
1
December, 2018
1
May, 2019
1
October, 2022
1
September, 2018
Available data
243
fastq
153
zippedFastqFolder
104
bam
32
tsv
21
bigWig
10
bed narrowPeak
10
bigBed narrowPeak
6
bed bed3+
6
bed broadPeak
6
bigBed broadPeak
4
tagAlign
2
csv
1
bed bedMethyl
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
583
Homo sapiens
Biosample type
957
tissue
455
primary cell
132
cell line
73
in vitro differentiated cells
6
stem cell
Organ
206
epithelium
195
pancreas
72
liver
18
kidney
14
blood
14
bodily fluid
8
blood vessel
8
vasculature
connective tissue
5
heart
5
vein
2
artery
2
musculature of body
1
bone element
1
bone marrow
1
eye
1
mammary gland
Project
321
HPAP
235
AMP
28
T1D
2
community
1
ITG
Genome assembly (visualization)
hg19
968
GRCh38
Lab
321
Klaus Kaestner, Upenn
210
AMP-T2D consortium
28
Kyle Gaulton, UCSD
19
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
42
inconsistent ontology term
27
audit script error
Audit category:
1
missing controlled_by
assembly!
hg19
organ_slims!
connective tissue
BIOSAMPLE
ASSAY
587 results
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Clear Filters
ATAC-seq
ChIP-seq
total RNA-seq
single cell RNA-seq
snATAC-seq
WGBS
pCHi-C
DNase-seq
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNAme array
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
primary cell
Langerhans cell
85
48
pancreatic alpha cell
29
6
42
31
pancreatic beta cell
16
6
11
16
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
1
+ See 34 more…
cell line
HepG2
56
9
1
1
2
1
1
EndoC_BH1
16
2
6
3
2
2
1
Panc1
7
GM12878
6
EndoC-BH1
1
1
+ See 11 more…
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