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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
107
single cell RNA-seq
105
total RNA-seq
88
ChIP-seq
50
ATAC-seq
49
snATAC-seq
41
WGBS
17
pCHi-C
4
Hi-C
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
216
Transcription
99
DNA accessibility
88
DNA binding
41
DNA methylation
4
3D chromatin structure
Target of assay
88
histone
88
histone modification
44
broad histone mark
44
narrow histone mark
Date released
153
May, 2021
134
May, 2022
47
September, 2023
45
May, 2020
20
February, 2023
19
April, 2020
18
September, 2020
16
January, 2021
7
March, 2020
5
March, 2023
3
October, 2022
Available data
196
bigWig
186
bam
fastq
153
zippedFastqFolder
104
tsv
88
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
462
Homo sapiens
Biosample type
360
primary cell
97
tissue
8
cell line
2
stem cell
Organ
117
pancreas
87
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
241
T1D
155
HPAP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
189
hg19
187
GRCh38
Lab
233
Kyle Gaulton, UCSD
155
Klaus Kaestner, Upenn
47
KPMP
19
Xin Sun, UCSD
8
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
9
inconsistent ontology term
3
audit script error
month_released!
February, 2020
files.file_type!
fastq
award.project!
AMP
assay_title!
CRISPR genome editing followed by DNA sequencing
BIOSAMPLE
ASSAY
467 results
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single cell RNA-seq
total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
shRNA RNA-seq
siRNA RNA-seq
primary cell
monocyte
53
84
1
Langerhans cell
51
21
pancreatic alpha cell
22
25
1
pancreatic beta cell
13
16
1
peripheral blood mononuclear cell
8
+ See 36 more…
tissue
kidney
47
islet of Langerhans
7
2
11
6
lung
9
10
pancreas
4
thymus
1
cell line
EndoC_BH1
2
2
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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