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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
360
total RNA-seq
229
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
48
WGBS
33
DNase-seq
23
pCHi-C
14
Hi-C
10
RRBS
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
FAIRE-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
DNA binding
551
Transcription
319
DNA accessibility
59
DNA methylation
14
3D chromatin structure
1
DNA sequencing
Target of assay
6
control
3
nucleotide modification
Date released
148
May, 2020
136
February, 2021
134
May, 2022
105
May, 2021
94
February, 2023
59
September, 2020
48
July, 2018
43
April, 2018
41
September, 2018
31
July, 2019
26
August, 2021
24
June, 2019
17
October, 2019
12
November, 2020
11
March, 2020
8
January, 2021
7
August, 2020
6
August, 2017
5
December, 2019
5
January, 2019
5
September, 2017
4
October, 2022
3
August, 2018
3
June, 2018
3
March, 2023
3
November, 2019
2
November, 2018
2
October, 2018
1
December, 2018
1
January, 2018
Available data
484
bam
477
bigWig
389
tsv
322
fastq
153
zippedFastqFolder
81
bed narrowPeak
54
bigBed narrowPeak
37
bed bed3+
29
bed broadPeak
29
bigBed broadPeak
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
983
Homo sapiens
Biosample type
1870
tissue
809
primary cell
196
in vitro differentiated cells
178
cell line
7
stem cell
Organ
378
epithelium
340
pancreas
74
vasculature
71
blood vessel
68
heart
62
artery
33
liver
30
kidney
27
connective tissue
12
brain
9
blood
9
bodily fluid
8
embryo
5
vein
4
musculature of body
2
adipose tissue
2
eye
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
533
AMP
324
HPAP
127
T1D
2
community
1
ITG
Genome assembly (visualization)
504
hg19
447
GRCh38
Lab
511
AMP-T2D consortium
324
Klaus Kaestner, Upenn
127
Kyle Gaulton, UCSD
16
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
1
ITG
Audit category:
96
inconsistent ontology term
31
audit script error
1
inconsistent replicate
Audit category:
1
inconsistent assembly
assay_slims!
DNA binding
BIOSAMPLE
ASSAY
987 results
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Clear Filters
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNAme array
FAIRE-seq
MPRA
shRNA RNA-seq
...and 2 more
primary cell
Langerhans cell
85
48
pancreatic alpha cell
52
35
12
31
1
pancreatic beta cell
21
23
12
16
1
monocyte
54
15
1
1
exocrine cell
39
+ See 92 more…
cell line
EndoC_BH1
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
52
8
HepG2
14
1
1
2
2
2
H1-hESC
8
EndoC-BH1
1
+ See 13 more…
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