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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
217
total RNA-seq
133
ChIP-seq
54
ATAC-seq
41
DNase-seq
10
Hi-C
10
MeRIP-seq
5
single cell RNA-seq
2
Capture-C
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
WGBS
1
pCHi-C
1
snATAC-seq
Assay category
224
Transcription
133
DNA binding
96
DNA accessibility
10
3D chromatin structure
3
DNA methylation
Target of assay
96
histone
96
histone modification
60
broad histone mark
40
control
36
narrow histone mark
5
nucleotide modification
2
transcription factor
1
RNA binding protein
Date released
118
July, 2018
87
October, 2019
60
May, 2021
55
November, 2019
36
June, 2019
32
February, 2021
20
August, 2017
16
October, 2018
11
July, 2019
10
November, 2020
9
May, 2019
7
March, 2020
5
April, 2018
4
August, 2021
4
February, 2020
4
March, 2019
1
August, 2022
1
February, 2023
Available data
797
bam
698
bigWig
416
tsv
fastq
302
bed narrowPeak
175
bigBed narrowPeak
65
bed bed3+
57
bed broadPeak
43
bigBed broadPeak
19
tagAlign
7
bed bedMethyl
7
bigBed bedMethyl
6
txt
4
bedpe bed3+
4
hic
1
bedpe
1
hdf5
Organism
479
Homo sapiens
Biosample type
384
tissue
88
cell line
5
primary cell
3
in vitro differentiated cells
Organ
582
connective tissue
447
adipose tissue
393
heart
358
pancreas
326
liver
307
kidney
265
brain
230
vasculature
227
blood vessel
180
epithelium
158
bone element
141
artery
122
limb
94
musculature of body
61
eye
43
nerve
22
vein
18
ureter
16
skeleton
10
embryo
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
1
adrenal gland
1
blood
1
bodily fluid
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
stomach
1
thymus
1
urinary bladder
Project
480
AMP
83
HPAP
34
T1D
Genome assembly (visualization)
382
hg19
368
GRCh38
Lab
463
AMP-T2D consortium
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
1
Kyle Gaulton, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
73
inconsistent ontology term
1
audit script error
Audit category:
1
inconsistent assembly
files.file_type!
fastq
organ_slims!
stomach
BIOSAMPLE
ASSAY
480 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
Hi-C
MeRIP-seq
single cell RNA-seq
Capture-C
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
WGBS
pCHi-C
snATAC-seq
tissue
islet of Langerhans
174
21
27
3
4
1
1
tibial nerve
5
35
1
2
tibial artery
1
23
1
2
muscle of leg
7
13
1
muscle of arm
17
+ See 12 more…
cell line
EndoC_BH1
31
13
19
1
6
2
1
Panc1
13
1
1
primary cell
pancreatic acinar cell
3
pancreatic ductal cell
1
pancreatic stellate cell
1
in vitro differentiated cells
pancreatic PP cell
3
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