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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
193
total RNA-seq
141
single cell RNA-seq
85
ChIP-seq
76
snATAC-seq
60
ATAC-seq
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
338
Transcription
136
DNA accessibility
85
DNA binding
DNA methylation
4
3D chromatin structure
Target of assay
85
histone
85
histone modification
44
broad histone mark
41
narrow histone mark
Date released
153
May, 2021
99
February, 2023
93
May, 2022
59
September, 2020
47
September, 2023
45
May, 2020
39
February, 2021
19
April, 2020
16
January, 2021
7
August, 2020
March, 2020
5
March, 2023
3
October, 2022
Available data
191
bigWig
181
bam
163
fastq
112
zippedFastqFolder
96
tsv
85
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
580
Homo sapiens
Biosample type
482
primary cell
93
tissue
8
cell line
2
stem cell
Organ
132
pancreas
106
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
277
HPAP
237
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
192
GRCh38
184
hg19
Lab
277
Klaus Kaestner, Upenn
236
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
4
Anna Gloyn, Oxford
1
AMP-T2D consortium
1
ITG
Audit category:
30
audit script error
6
inconsistent ontology term
assay_slims!
DNA methylation
award.project!
AMP
month_released!
March, 2020
organ_slims!
small intestine
BIOSAMPLE
ASSAY
585 results
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total RNA-seq
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
monocyte
53
84
1
Langerhans cell
85
48
pancreatic alpha cell
42
29
1
exocrine cell
39
pancreatic beta cell
11
16
1
+ See 37 more…
tissue
kidney
47
islet of Langerhans
5
6
11
lung
9
10
pancreas
4
thymus
1
cell line
EndoC_BH1
1
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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