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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
204
total RNA-seq
172
ChIP-seq
85
single cell RNA-seq
47
WGBS
16
pCHi-C
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
Hi-C
2
HiChIP
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
292
Transcription
172
DNA binding
DNA accessibility
47
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
137
histone
137
histone modification
75
broad histone mark
62
narrow histone mark
23
transcription factor
15
control
6
RNA binding protein
3
nucleotide modification
Date released
228
May, 2021
81
February, 2023
74
May, 2022
56
September, 2020
45
May, 2020
36
August, 2021
18
February, 2021
6
November, 2020
4
March, 2023
October, 2022
Available data
229
bigWig
180
bam
132
fastq
128
bed narrowPeak
111
tsv
93
zippedFastqFolder
84
tagAlign
4
bed bed3+
2
hic
1
bedpe bed3+
1
vcf
Organism
545
Homo sapiens
Biosample type
456
primary cell
tissue
46
cell line
44
in vitro differentiated cells
2
stem cell
Organ
106
epithelium
106
pancreas
31
liver
3
connective tissue
2
kidney
1
bone element
1
bone marrow
Project
224
HPAP
201
T1D
119
AMP
3
community
1
ITG
Genome assembly (visualization)
232
hg19
181
GRCh38
Lab
AMP-T2D consortium
278
Kyle Gaulton, UCSD
224
Klaus Kaestner, Upenn
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
3
Anna Gloyn, Oxford
2
Struan F.A. Grant, CHOP
1
ITG
Audit category:
12
inconsistent ontology term
assay_slims!
DNA accessibility
assay_title!
shRNA RNA-seq
biosample_type!
tissue
lab.title!
AMP-T2D consortium
month_released!
October, 2022
BIOSAMPLE
ASSAY
548 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
WGBS
pCHi-C
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
Hi-C
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
siRNA RNA-seq
whole genome sequencing assay
primary cell
monocyte
53
84
1
Langerhans cell
85
pancreatic alpha cell
42
31
exocrine cell
39
CD8-positive, alpha-beta T cell
4
33
1
+ See 35 more…
cell line
HepG2
9
18
2
1
1
EndoC_BH1
6
3
2
HEK293T
2
EndoC-BH1
1
Synthesized DNA
1
in vitro differentiated cells
embryonic stem cell
5
37
adipocyte
1
osteoblast
1
stem cell
SB Ad3.1
1
1
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