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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
247
total RNA-seq
222
ChIP-seq
187
single cell RNA-seq
171
ATAC-seq
56
snATAC-seq
47
WGBS
17
pCHi-C
10
Hi-C
10
RRBS
2
DNase-seq
2
small RNA-seq
1
DNAme array
Assay category
436
Transcription
229
DNA accessibility
222
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
190
histone
190
histone modification
101
broad histone mark
89
narrow histone mark
35
control
Date released
206
May, 2021
147
May, 2020
134
May, 2022
88
February, 2023
59
September, 2018
59
September, 2020
48
February, 2021
48
July, 2018
43
April, 2018
40
August, 2017
31
July, 2019
21
October, 2019
8
January, 2021
8
June, 2019
August, 2020
5
December, 2019
5
November, 2020
4
August, 2021
3
August, 2018
3
June, 2018
3
November, 2017
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
May, 2019
1
November, 2018
Available data
609
bam
606
bigWig
402
fastq
295
bed narrowPeak
270
tsv
153
zippedFastqFolder
bigBed narrowPeak
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
972
Homo sapiens
Biosample type
2212
tissue
972
primary cell
377
in vitro differentiated cells
301
cell line
10
stem cell
Organ
338
epithelium
317
pancreas
24
connective tissue
20
kidney
16
vasculature
14
blood vessel
12
liver
10
brain
9
vein
8
blood
8
bodily fluid
7
heart
5
musculature of body
2
adipose tissue
2
artery
2
eye
1
bone element
1
bone marrow
1
pericardium
Project
450
AMP
317
HPAP
204
T1D
1
ITG
Genome assembly (visualization)
526
hg19
424
GRCh38
Lab
415
AMP-T2D consortium
317
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
1
ITG
Audit category:
31
audit script error
31
inconsistent ontology term
Audit category:
44
missing controlled_by
Audit category:
4
inconsistent control read length
files.file_type!
bigBed narrowPeak
lab.title!
Rohit N. Kulkarni, M.D., Ph.D.
month_released!
August, 2020
BIOSAMPLE
ASSAY
972 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
DNase-seq
small RNA-seq
DNAme array
primary cell
monocyte
54
85
15
1
1
Langerhans cell
85
48
pancreatic alpha cell
52
13
12
24
31
1
pancreatic beta cell
21
13
12
14
16
1
CD8-positive, alpha-beta T cell
4
33
2
1
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