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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
total RNA-seq
141
single cell RNA-seq
88
ChIP-seq
76
snATAC-seq
60
ATAC-seq
WGBS
17
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
145
Transcription
136
DNA accessibility
88
DNA binding
4
3D chromatin structure
Target of assay
88
histone
88
histone modification
44
broad histone mark
44
narrow histone mark
Date released
102
May, 2021
93
May, 2022
47
September, 2023
43
September, 2020
39
February, 2021
19
April, 2020
18
February, 2023
16
January, 2021
7
August, 2020
5
March, 2023
3
March, 2020
3
October, 2022
Available data
112
zippedFastqFolder
98
bigWig
88
bam
88
bed narrowPeak
84
tagAlign
71
fastq
4
hic
3
bedpe bed3+
3
cool
Organism
390
Homo sapiens
Biosample type
294
primary cell
90
tissue
9
cell line
2
stem cell
Organ
77
pancreas
54
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
185
HPAP
139
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
99
GRCh38
91
hg19
Lab
185
Klaus Kaestner, Upenn
135
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
3
inconsistent ontology term
assay_title!
WGBS
total RNA-seq
award.project!
AMP
BIOSAMPLE
ASSAY
395 results
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single cell RNA-seq
ChIP-seq
snATAC-seq
ATAC-seq
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
Langerhans cell
85
48
monocyte
84
1
pancreatic alpha cell
29
1
pancreatic beta cell
16
1
peripheral blood mononuclear cell
8
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tissue
kidney
47
islet of Langerhans
2
6
11
lung
9
10
pancreas
4
thymus
1
cell line
EndoC_BH1
2
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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