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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
60
ATAC-seq
15
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
136
DNA accessibility
86
DNA binding
DNA methylation
4
3D chromatin structure
Target of assay
86
histone
86
histone modification
44
broad histone mark
42
narrow histone mark
Date released
150
May, 2021
99
February, 2023
93
May, 2022
59
September, 2020
47
September, 2023
41
May, 2020
39
February, 2021
19
April, 2020
16
January, 2021
7
August, 2020
5
March, 2023
4
March, 2020
3
October, 2022
Available data
188
bigWig
178
bam
163
fastq
112
zippedFastqFolder
92
tsv
86
bed narrowPeak
84
tagAlign
4
hic
3
bedpe bed3+
3
cool
Organism
577
Homo sapiens
Biosample type
477
primary cell
96
tissue
7
cell line
2
stem cell
Organ
135
pancreas
105
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
thymus
Project
AMP
277
HPAP
234
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
189
GRCh38
181
hg19
Lab
277
Klaus Kaestner, Upenn
230
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
organ_slims!
thymus
award.project!
AMP
assay_slims!
DNA methylation
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
582 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 35 more…
tissue
kidney
47
islet of Langerhans
7
2
6
11
lung
9
10
pancreas
4
cell line
EndoC_BH1
3
2
EndoC-BH1
1
1
stem cell
SB Ad3.1
1
1
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