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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
360
total RNA-seq
187
single cell RNA-seq
180
ATAC-seq
145
ChIP-seq
56
snATAC-seq
48
WGBS
23
pCHi-C
Hi-C
10
RRBS
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
2
small RNA-seq
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
551
Transcription
238
DNA accessibility
145
DNA binding
59
DNA methylation
1
DNA sequencing
Target of assay
118
control
24
histone
24
histone modification
12
broad histone mark
12
narrow histone mark
9
transcription factor
3
nucleotide modification
2
RNA binding protein
1
recombinant protein
Date released
148
May, 2020
134
May, 2022
129
February, 2021
99
May, 2021
94
February, 2023
69
November, 2017
59
September, 2020
48
July, 2018
43
April, 2018
30
August, 2021
27
July, 2019
27
September, 2018
26
August, 2017
26
October, 2019
10
March, 2020
10
November, 2020
8
January, 2019
8
January, 2021
8
June, 2019
7
August, 2020
6
November, 2018
5
December, 2019
3
August, 2018
3
June, 2018
3
November, 2019
2
March, 2023
2
October, 2018
1
January, 2018
1
May, 2019
1
October, 2022
Available data
1191
bam
1130
bigWig
835
fastq
bed narrowPeak
464
bigBed narrowPeak
389
tsv
153
zippedFastqFolder
120
tagAlign
108
bed broadPeak
108
bigBed broadPeak
35
bed bed3+
11
bed bedMethyl
11
bigBed bedMethyl
4
tar
2
bed bed3
2
csv
1
txt
1
vcf
Organism
1033
Homo sapiens
Biosample type
1777
tissue
783
primary cell
258
in vitro differentiated cells
254
cell line
8
stem cell
Organ
356
epithelium
344
pancreas
98
liver
66
vasculature
64
blood vessel
61
heart
56
artery
25
kidney
21
connective tissue
15
blood
15
bodily fluid
8
embryo
7
brain
7
vein
5
musculature of body
2
adipose tissue
2
eye
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
587
AMP
321
HPAP
127
T1D
2
community
Genome assembly (visualization)
458
hg19
379
GRCh38
Lab
559
AMP-T2D consortium
321
Klaus Kaestner, Upenn
130
Kyle Gaulton, UCSD
19
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
99
inconsistent ontology term
27
audit script error
Audit category:
13
missing controlled_by
Audit category:
2
inconsistent control read length
assay_title!
Hi-C
files.file_type!
bed narrowPeak
BIOSAMPLE
ASSAY
1037 results
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Clear Filters
total RNA-seq
single cell RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
RRBS
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
small RNA-seq
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
52
12
29
6
31
pancreatic beta cell
21
12
16
6
16
monocyte
54
2
1
1
1
exocrine cell
39
+ See 84 more…
cell line
HepG2
14
71
1
2
2
EndoC_BH1
33
18
2
6
3
2
2
1
smooth muscle cell of the coronary artery
52
2
H1-hESC
8
GM12878
1
6
+ See 14 more…
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