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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
191
total RNA-seq
141
single cell RNA-seq
86
ChIP-seq
76
snATAC-seq
ATAC-seq
47
WGBS
16
pCHi-C
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
336
Transcription
86
DNA binding
76
DNA accessibility
47
DNA methylation
4
3D chromatin structure
Target of assay
86
histone
86
histone modification
44
broad histone mark
42
narrow histone mark
Date released
151
May, 2021
95
May, 2022
88
February, 2023
56
September, 2020
47
September, 2023
45
February, 2021
41
May, 2020
19
April, 2020
16
January, 2021
5
March, 2023
4
March, 2020
3
October, 2022
Available data
178
bam
178
bigWig
159
fastq
114
zippedFastqFolder
98
tsv
86
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
565
Homo sapiens
Biosample type
475
primary cell
86
tissue
7
cell line
2
stem cell
Organ
122
pancreas
103
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
275
HPAP
224
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
181
hg19
179
GRCh38
Lab
275
Klaus Kaestner, Upenn
220
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
4
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
inconsistent ontology term
files.file_type!
xls
audit.ERROR.category!
inconsistent ontology term
assay_title!
ATAC-seq
award.project!
AMP
BIOSAMPLE
ASSAY
570 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
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
85
48
pancreatic alpha cell
42
31
1
exocrine cell
39
pancreatic beta cell
11
16
1
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tissue
kidney
47
lung
9
10
islet of Langerhans
7
2
6
pancreas
4
thymus
1
cell line
EndoC_BH1
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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