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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
142
total RNA-seq
141
single cell RNA-seq
86
ChIP-seq
76
snATAC-seq
17
pCHi-C
11
ATAC-seq
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
Hi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
287
Transcription
87
DNA accessibility
86
DNA binding
1
3D chromatin structure
Target of assay
86
histone
86
histone modification
44
broad histone mark
42
narrow histone mark
Date released
152
May, 2021
62
February, 2023
54
May, 2022
47
September, 2023
45
May, 2020
40
September, 2020
39
February, 2021
19
April, 2020
16
January, 2021
5
March, 2023
4
March, 2020
Available data
182
bam
182
bigWig
100
fastq
96
tsv
86
bed narrowPeak
84
tagAlign
73
zippedFastqFolder
1
hic
Organism
478
Homo sapiens
Biosample type
377
primary cell
97
tissue
7
cell line
2
stem cell
Organ
186
pancreas
epithelium
47
kidney
19
lung
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
AMP
240
T1D
172
HPAP
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
183
GRCh38
182
hg19
Lab
236
Kyle Gaulton, UCSD
172
Klaus Kaestner, Upenn
47
KPMP
19
Xin Sun, UCSD
4
AMP-T2D consortium
4
Anna Gloyn, Oxford
1
ITG
Audit category:
27
audit script error
5
inconsistent ontology term
audit.NOT_COMPLIANT.category!
missing controlled_by
award.project!
AMP
organ_slims!
epithelium
ureter
BIOSAMPLE
ASSAY
483 results
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total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
pCHi-C
ATAC-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
Hi-C
shRNA RNA-seq
siRNA RNA-seq
primary cell
monocyte
53
84
1
Langerhans cell
85
48
exocrine cell
39
peripheral blood mononuclear cell
8
B cell
2
1
+ See 34 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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