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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
197
total RNA-seq
88
ChIP-seq
55
snATAC-seq
42
single cell RNA-seq
21
ATAC-seq
17
pCHi-C
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
243
Transcription
88
DNA binding
76
DNA accessibility
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
September, 2023
45
May, 2020
40
September, 2020
39
February, 2021
19
April, 2020
16
January, 2021
7
August, 2020
7
March, 2020
5
March, 2023
3
October, 2022
Available data
196
bigWig
186
bam
163
fastq
zippedFastqFolder
98
tsv
88
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
428
Homo sapiens
Biosample type
370
primary cell
50
tissue
11
cell line
2
stem cell
Organ
100
pancreas
70
epithelium
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
244
T1D
165
HPAP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
197
GRCh38
189
hg19
Lab
236
Kyle Gaulton, UCSD
165
Klaus Kaestner, Upenn
19
Xin Sun, UCSD
8
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
9
inconsistent ontology term
assay_title!
WGBS
audit.NOT_COMPLIANT.category!
missing controlled_by
award.project!
AMP
files.file_type!
zippedFastqFolder
month_released!
September, 2023
BIOSAMPLE
ASSAY
433 results
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total RNA-seq
ChIP-seq
snATAC-seq
single cell RNA-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
monocyte
53
84
1
Langerhans cell
27
33
pancreatic alpha cell
42
7
1
exocrine cell
39
pancreatic beta cell
11
3
1
+ See 37 more…
tissue
islet of Langerhans
7
2
6
11
lung
10
9
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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