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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
148
ATAC-seq
104
total RNA-seq
87
single cell RNA-seq
58
ChIP-seq
56
snATAC-seq
47
WGBS
23
pCHi-C
10
RRBS
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
206
DNA accessibility
193
Transcription
58
DNA binding
58
DNA methylation
9
3D chromatin structure
1
DNA sequencing
Target of assay
52
control
8
histone
8
histone modification
5
broad histone mark
3
narrow histone mark
3
nucleotide modification
1
recombinant protein
1
transcription factor
Date released
134
May, 2022
94
February, 2023
59
February, 2021
58
May, 2020
56
September, 2020
51
May, 2021
November, 2017
23
August, 2021
21
October, 2019
13
August, 2017
9
July, 2019
8
January, 2021
8
June, 2019
7
November, 2020
5
March, 2020
5
November, 2018
4
November, 2019
4
October, 2022
3
January, 2019
3
March, 2023
1
December, 2018
1
May, 2019
1
September, 2018
Available data
868
bam
bigWig
512
fastq
444
bed narrowPeak
389
tsv
209
bigBed narrowPeak
153
zippedFastqFolder
108
tagAlign
44
bed broadPeak
44
bigBed broadPeak
40
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
8
hic
6
bedpe bed3+
5
hdf5
3
cool
2
bed bed3
2
csv
1
tar
1
txt
1
vcf
Organism
564
Homo sapiens
Biosample type
980
tissue
475
primary cell
135
in vitro differentiated cells
93
cell line
7
stem cell
Organ
204
epithelium
190
pancreas
25
liver
18
vasculature
17
blood vessel
15
kidney
14
blood
14
bodily fluid
13
heart
10
artery
7
connective tissue
7
vein
3
musculature of body
2
eye
1
bone element
1
bone marrow
1
brain
1
mammary gland
Project
314
HPAP
222
AMP
29
T1D
2
community
1
ITG
Genome assembly (visualization)
45
hg19
27
GRCh38
Lab
314
Klaus Kaestner, Upenn
196
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:
50
inconsistent ontology term
31
audit script error
1
inconsistent replicate
Audit category:
1
missing controlled_by
files.file_type!
bigWig
month_released!
November, 2017
BIOSAMPLE
ASSAY
568 results
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Clear Filters
ATAC-seq
total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
RRBS
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
6
31
1
pancreatic beta cell
13
11
6
16
1
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
22
1
2
1
+ See 41 more…
cell line
EndoC_BH1
17
2
1
6
3
2
2
1
HepG2
1
9
5
2
2
2
smooth muscle cell of the coronary artery
8
2
Panc1
7
GM12878
6
+ See 11 more…
See all biosamples
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