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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
281
total RNA-seq
175
ChIP-seq
152
single cell RNA-seq
47
WGBS
17
pCHi-C
10
MeRIP-seq
8
Hi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
whole genome sequencing assay
Assay category
433
Transcription
DNA accessibility
175
DNA binding
47
DNA methylation
8
3D chromatin structure
1
DNA sequencing
Target of assay
152
histone
152
histone modification
85
broad histone mark
67
narrow histone mark
16
transcription factor
12
control
6
RNA binding protein
5
nucleotide modification
Date released
188
May, 2021
100
May, 2022
94
August, 2021
86
February, 2023
56
September, 2020
47
September, 2023
45
May, 2020
40
May, 2024
18
February, 2021
10
November, 2020
9
April, 2020
3
May, 2023
3
October, 2022
1
March, 2019
1
March, 2023
Available data
269
bigWig
186
bam
168
bed narrowPeak
138
fastq
112
tsv
93
zippedFastqFolder
84
tagAlign
63
txt
7
hic
5
bedpe bed3+
3
cool
2
bed bed3+
1
bedpe
1
vcf
Organism
701
Homo sapiens
Biosample type
459
primary cell
197
tissue
45
cell line
in vitro differentiated cells
Organ
128
pancreas
110
kidney
109
epithelium
51
liver
40
heart
9
lung
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
227
HPAP
210
AMP
207
T1D
47
KPMP
9
LungMap
community
1
ITG
Genome assembly (visualization)
235
hg19
221
GRCh38
Lab
AMP-T2D consortium
249
Kyle Gaulton, UCSD
227
Klaus Kaestner, Upenn
61
Katalin Susztak, Upenn
47
KPMP
40
Patrick T. Ellinor, Broad
37
Bing Ren, UCSD
20
Karen Mohlke, UNC
10
Rohit N. Kulkarni, M.D., Ph.D.
9
Xin Sun, UCSD
1
ITG
Audit category:
12
inconsistent ontology term
3
audit script error
assay_slims!
DNA accessibility
award.project!
community
biosample_type!
in vitro differentiated cells
files.file_type!
bed bed3
lab.title!
AMP-T2D consortium
BIOSAMPLE
ASSAY
701 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
WGBS
pCHi-C
MeRIP-seq
Hi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
whole genome sequencing assay
primary cell
monocyte
53
84
1
Langerhans cell
85
pancreatic alpha cell
42
31
1
exocrine cell
39
CD8-positive, alpha-beta T cell
4
33
1
+ See 36 more…
tissue
kidney
49
58
1
left cardiac atrium
40
liver
20
islet of Langerhans
12
4
2
lung
9
+ See 2 more…
cell line
HepG2
9
18
1
2
1
EndoC_BH1
6
3
2
HEK293T
2
Synthesized DNA
1
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