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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
104
total RNA-seq
103
ChIP-seq
87
single cell RNA-seq
48
WGBS
48
snATAC-seq
21
pCHi-C
9
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
193
Transcription
189
DNA accessibility
103
DNA binding
49
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
89
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
38
May, 2021
22
August, 2021
18
October, 2019
15
June, 2019
12
August, 2017
7
August, 2020
6
November, 2020
5
November, 2018
4
March, 2020
3
March, 2023
2
November, 2019
1
December, 2018
1
May, 2019
1
October, 2022
1
September, 2018
Available data
237
fastq
153
zippedFastqFolder
102
bam
32
tsv
22
bigWig
11
bed narrowPeak
11
bigBed narrowPeak
7
bed bed3+
7
bed broadPeak
7
bigBed broadPeak
4
tagAlign
2
csv
1
bed bedMethyl
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
574
Homo sapiens
Biosample type
1022
tissue
452
primary cell
126
cell line
97
in vitro differentiated cells
7
stem cell
Organ
206
epithelium
195
pancreas
72
liver
18
kidney
blood
14
bodily fluid
8
blood vessel
8
vasculature
5
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
233
AMP
21
T1D
2
community
1
ITG
Genome assembly (visualization)
hg19
943
GRCh38
Lab
321
Klaus Kaestner, Upenn
208
AMP-T2D consortium
21
Kyle Gaulton, UCSD
19
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
44
inconsistent ontology term
27
audit script error
Audit category:
1
missing controlled_by
assembly!
hg19
month_released!
June, 2018
organ_slims!
blood
BIOSAMPLE
ASSAY
578 results
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Clear Filters
ATAC-seq
total RNA-seq
ChIP-seq
single cell RNA-seq
WGBS
snATAC-seq
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
42
6
31
pancreatic beta cell
16
11
6
16
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
22
1
2
1
+ See 36 more…
cell line
HepG2
9
56
1
1
2
1
1
EndoC_BH1
16
2
6
3
2
2
1
Panc1
7
EndoC-BH1
1
1
HEK293T
2
+ See 10 more…
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