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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
199
total RNA-seq
135
ChIP-seq
single cell RNA-seq
56
snATAC-seq
49
ATAC-seq
47
WGBS
16
pCHi-C
6
MeRIP-seq
5
Hi-C
5
STARR-seq
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
1
whole genome sequencing assay
Assay category
203
Transcription
135
DNA binding
105
DNA accessibility
47
DNA methylation
5
3D chromatin structure
1
DNA sequencing
Target of assay
117
histone
117
histone modification
65
broad histone mark
52
narrow histone mark
11
transcription factor
10
control
3
nucleotide modification
1
RNA binding protein
Date released
186
May, 2021
101
May, 2022
81
February, 2023
45
May, 2020
34
August, 2021
33
February, 2021
19
September, 2020
8
January, 2021
7
August, 2020
6
November, 2020
5
March, 2023
3
October, 2022
Available data
239
bigWig
180
bam
135
fastq
128
bed narrowPeak
111
tsv
101
zippedFastqFolder
84
tagAlign
5
hic
4
bedpe bed3+
3
cool
2
bed bed3+
1
vcf
Organism
524
Homo sapiens
Biosample type
479
primary cell
tissue
in vitro differentiated cells
47
cell line
2
stem cell
Organ
158
epithelium
158
pancreas
31
liver
8
blood
8
bodily fluid
2
kidney
1
bone element
1
bone marrow
1
connective tissue
Project
239
HPAP
209
T1D
75
AMP
4
community
1
ITG
Genome assembly (visualization)
233
hg19
191
GRCh38
Lab
AMP-T2D consortium
244
Kyle Gaulton, UCSD
239
Klaus Kaestner, Upenn
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
4
Anna Gloyn, Oxford
1
ITG
Audit category:
30
audit script error
12
inconsistent ontology term
lab.title!
AMP-T2D consortium
biosample_type!
in vitro differentiated cells
tissue
assay_title!
single cell RNA-seq
BIOSAMPLE
ASSAY
528 results
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Clear Filters
total RNA-seq
ChIP-seq
snATAC-seq
ATAC-seq
WGBS
pCHi-C
MeRIP-seq
Hi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
primary cell
monocyte
53
84
1
pancreatic alpha cell
42
29
31
1
Langerhans cell
48
pancreatic beta cell
11
16
16
1
exocrine cell
39
+ See 37 more…
cell line
HepG2
9
18
1
2
1
EndoC_BH1
6
3
2
EndoC-BH1
1
1
HEK293T
2
Synthesized DNA
1
stem cell
SB Ad3.1
1
1
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