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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1025
total RNA-seq
870
ChIP-seq
248
ATAC-seq
176
DNase-seq
174
single cell RNA-seq
87
RNA microarray
27
WGBS
24
pCHi-C
18
snATAC-seq
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1215
Transcription
870
DNA binding
446
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
602
histone modification
601
histone
314
narrow histone mark
287
broad histone mark
176
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
229
August, 2021
200
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
82
November, 2017
80
April, 2019
77
February, 2023
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
May, 2024
40
November, 2019
39
May, 2021
36
March, 2020
26
November, 2018
24
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1863
bam
1739
bigWig
1071
tsv
955
bed narrowPeak
535
bigBed narrowPeak
377
fastq
238
tagAlign
211
bed broadPeak
203
bed bed3+
174
bigBed broadPeak
157
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
2694
Homo sapiens
Biosample type
2703
tissue
653
cell line
560
primary cell
394
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
488
adipose tissue
475
pancreas
361
liver
313
heart
299
kidney
265
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
nerve
25
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
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
thymus
1
urinary bladder
Project
2637
AMP
47
KPMP
T1D
19
LungMap
Genome assembly (visualization)
1826
GRCh38
1722
hg19
Lab
2378
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
25
Kyle Gaulton, UCSD
19
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:
91
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
lab.title!
Klaus Kaestner, Upenn
award.project!
T1D
organ_slims!
nerve
BIOSAMPLE
ASSAY
2703 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
291
69
57
1
4
1
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
2
1
3
1
1
1
1
kidney
49
27
75
13
64
6
1
1
1
bone element
84
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