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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
197
total RNA-seq
89
single cell RNA-seq
88
ChIP-seq
55
snATAC-seq
21
ATAC-seq
17
pCHi-C
6
WGBS
4
Hi-C
3
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
290
Transcription
88
DNA binding
76
DNA accessibility
6
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
99
February, 2023
47
September, 2023
45
February, 2021
45
May, 2020
40
September, 2020
19
April, 2020
16
January, 2021
7
August, 2020
7
March, 2020
5
March, 2023
3
October, 2022
Available data
196
bigWig
186
bam
169
fastq
zippedFastqFolder
104
tsv
88
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
481
Homo sapiens
Biosample type
376
primary cell
97
tissue
11
cell line
2
stem cell
Organ
106
pancreas
76
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
244
T1D
171
HPAP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
197
GRCh38
189
hg19
Lab
236
Kyle Gaulton, UCSD
171
Klaus Kaestner, Upenn
47
KPMP
19
Xin Sun, UCSD
8
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
9
inconsistent ontology term
organ_slims!
nerve
files.file_type!
zippedFastqFolder
award.project!
AMP
BIOSAMPLE
ASSAY
486 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
ATAC-seq
pCHi-C
WGBS
Hi-C
CRISPR genome editing followed by DNA sequencing
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
shRNA RNA-seq
siRNA RNA-seq
primary cell
monocyte
53
84
1
Langerhans cell
33
27
pancreatic alpha cell
42
7
6
1
exocrine cell
39
pancreatic beta cell
11
3
1
+ See 37 more…
tissue
kidney
47
islet of Langerhans
7
2
6
11
lung
9
10
pancreas
4
thymus
1
cell line
EndoC_BH1
2
2
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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