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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
53
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
129
DNA accessibility
86
DNA binding
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
134
May, 2022
99
February, 2023
59
September, 2020
47
September, 2023
45
February, 2021
41
May, 2020
19
April, 2020
16
January, 2021
August, 2020
5
March, 2023
4
March, 2020
3
October, 2022
Available data
181
bigWig
178
bam
162
fastq
153
zippedFastqFolder
98
tsv
86
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
618
Homo sapiens
Biosample type
517
primary cell
97
tissue
7
cell line
2
stem cell
Organ
175
pancreas
145
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
317
HPAP
235
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
182
GRCh38
181
hg19
Lab
317
Klaus Kaestner, Upenn
231
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
award.project!
AMP
audit.ERROR.category!
inconsistent ontology term
month_released!
August, 2020
BIOSAMPLE
ASSAY
623 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
ATAC-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
24
31
1
pancreatic beta cell
11
14
16
1
exocrine cell
39
+ See 35 more…
tissue
kidney
47
islet of Langerhans
7
2
6
11
lung
9
10
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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