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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
974
total RNA-seq
852
ChIP-seq
174
ATAC-seq
110
DNase-seq
107
single cell RNA-seq
85
RNA microarray
27
WGBS
24
pCHi-C
15
Hi-C
15
small RNA-seq
9
RRBS
4
MeRIP-seq
3
FAIRE-seq
2
snATAC-seq
Assay category
1096
Transcription
852
DNA binding
289
DNA accessibility
36
DNA methylation
15
3D chromatin structure
Target of assay
598
histone modification
597
histone
308
narrow histone mark
289
broad histone mark
181
control
75
transcription factor
26
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
537
February, 2021
262
August, 2017
238
October, 2019
193
May, 2020
120
July, 2018
115
May, 2019
101
August, 2021
95
June, 2019
82
November, 2017
77
February, 2023
74
October, 2018
72
July, 2019
66
May, 2022
57
April, 2019
48
December, 2017
40
May, 2024
40
November, 2019
39
May, 2021
36
March, 2020
26
November, 2018
25
February, 2020
19
October, 2017
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
2
January, 2018
1
August, 2022
1
May, 2023
Available data
1782
bam
1654
bigWig
1064
tsv
825
bed narrowPeak
471
bigBed narrowPeak
351
fastq
234
tagAlign
143
bed broadPeak
123
bed bed3+
108
bigBed broadPeak
95
txt
23
bed bedMethyl
23
bigBed bedMethyl
10
bedpe bed3+
10
hic
5
bed bed3
1
bedpe
1
csv
1
tagAlign bed3+
Organism
2393
Homo sapiens
Biosample type
2401
tissue
619
cell line
478
primary cell
388
in vitro differentiated cells
8
stem cell
Organ
535
connective tissue
476
adipose tissue
465
pancreas
361
liver
313
heart
261
brain
kidney
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
25
spleen
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2401
AMP
31
T1D
19
LungMap
Genome assembly (visualization)
1667
GRCh38
1635
hg19
Lab
2284
AMP-T2D consortium
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
25
Kyle Gaulton, 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:
91
inconsistent ontology term
27
inconsistent control
2
audit script error
Audit category:
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
audit.NOT_COMPLIANT.category!
missing controlled_by
organ_slims!
kidney
pericardium
BIOSAMPLE
ASSAY
2401 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
snATAC-seq
tissue
islet of Langerhans
285
59
57
1
6
4
3
1
4
1
1
adipose tissue
382
2
3
3
1
liver
167
145
20
2
1
3
1
1
1
1
bone element
84
heart left ventricle
3
35
2
3
18
4
1
1
1
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