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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
260
ATAC-seq
174
single cell RNA-seq
87
RNA microarray
snATAC-seq
27
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1227
Transcription
907
DNA binding
262
DNA accessibility
38
DNA methylation
16
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
283
August, 2017
238
October, 2019
223
August, 2021
193
May, 2020
120
July, 2018
115
May, 2019
93
February, 2023
82
November, 2017
80
April, 2019
75
July, 2019
74
October, 2018
65
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
16
November, 2018
15
May, 2023
9
April, 2020
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
Available data
1903
bam
1768
bigWig
1076
tsv
980
bed narrowPeak
557
bigBed narrowPeak
375
fastq
238
tagAlign
213
bed broadPeak
204
bed bed3+
bigBed broadPeak
156
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2561
Homo sapiens
Biosample type
2569
tissue
982
primary cell
603
cell line
393
in vitro differentiated cells
10
stem cell
Organ
545
connective tissue
486
adipose tissue
486
pancreas
358
liver
286
heart
237
brain
224
kidney
158
bone element
128
blood vessel
128
vasculature
86
limb
69
artery
53
eye
49
musculature of body
41
nerve
24
spleen
16
skeleton
15
epithelium
10
lung
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2492
AMP
47
KPMP
21
T1D
9
LungMap
Genome assembly (visualization)
1683
GRCh38
1590
hg19
Lab
2243
AMP-T2D consortium
136
Katalin Susztak, Upenn
47
KPMP
42
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
9
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
90
inconsistent ontology term
27
inconsistent control
7
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bigBed broadPeak
assay_title!
FAIRE-seq
snATAC-seq
BIOSAMPLE
ASSAY
2569 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
298
71
68
4
3
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
1
1
bone element
84
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