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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1037
total RNA-seq
907
ChIP-seq
256
ATAC-seq
165
single cell RNA-seq
87
RNA microarray
27
WGBS
25
pCHi-C
18
snATAC-seq
16
small RNA-seq
15
Hi-C
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1218
Transcription
907
DNA binding
280
DNA accessibility
38
DNA methylation
15
3D chromatin structure
Target of assay
628
histone modification
627
histone
324
narrow histone mark
303
broad histone mark
187
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
238
October, 2019
229
August, 2021
193
May, 2020
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
25
February, 2020
23
October, 2017
17
November, 2018
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1906
bam
1772
bigWig
1076
tsv
984
bed narrowPeak
561
bigBed narrowPeak
376
fastq
238
tagAlign
212
bed broadPeak
205
bed bed3+
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
10
bedpe bed3+
10
hic
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2569
Homo sapiens
Biosample type
2577
tissue
1039
primary cell
603
cell line
393
in vitro differentiated cells
10
stem cell
Organ
545
connective tissue
494
pancreas
486
adipose tissue
358
liver
286
heart
238
brain
231
kidney
158
bone element
128
blood vessel
128
vasculature
86
limb
69
artery
53
eye
50
musculature of body
41
nerve
24
spleen
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2499
AMP
47
KPMP
31
T1D
Genome assembly (visualization)
1681
GRCh38
1592
hg19
Lab
2249
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
Xin Sun, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Bing Ren, UCSD
1
Stephen Parker, UMich
Audit category:
90
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bigBed broadPeak
month_released!
March, 2019
lab.title!
Xin Sun, UCSD
BIOSAMPLE
ASSAY
2577 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
small RNA-seq
Hi-C
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
298
71
64
4
7
2
1
1
4
1
adipose tissue
382
2
3
3
1
liver
167
145
20
1
3
1
1
1
1
kidney
49
27
75
64
6
1
1
1
bone element
84
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