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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
197
total RNA-seq
141
single cell RNA-seq
88
ChIP-seq
76
snATAC-seq
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
342
Transcription
88
DNA binding
76
DNA accessibility
DNA methylation
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
88
February, 2023
56
September, 2020
54
May, 2022
47
September, 2023
45
May, 2020
39
February, 2021
19
April, 2020
16
January, 2021
7
March, 2020
5
March, 2023
3
October, 2022
Available data
186
bam
186
bigWig
153
fastq
98
tsv
88
bed narrowPeak
84
tagAlign
73
zippedFastqFolder
4
hic
3
bedpe bed3+
3
cool
Organism
527
Homo sapiens
Biosample type
433
primary cell
86
tissue
11
cell line
2
stem cell
Organ
79
pancreas
60
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
233
T1D
228
HPAP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
189
hg19
187
GRCh38
Lab
228
Klaus Kaestner, Upenn
225
Kyle Gaulton, UCSD
47
KPMP
19
Xin Sun, UCSD
8
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
9
inconsistent ontology term
award.project!
AMP
assay_title!
ATAC-seq
assay_slims!
DNA methylation
BIOSAMPLE
ASSAY
532 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-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
1
exocrine cell
39
pancreatic beta cell
11
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
2
2
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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