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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1252
total RNA-seq
730
ChIP-seq
446
ATAC-seq
366
single cell RNA-seq
209
DNase-seq
87
RNA microarray
84
snATAC-seq
42
pCHi-C
26
Hi-C
18
small RNA-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1636
Transcription
744
DNA accessibility
730
DNA binding
DNA methylation
26
3D chromatin structure
Target of assay
833
histone modification
832
histone
narrow histone mark
408
broad histone mark
222
control
104
transcription factor
38
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
587
February, 2021
313
May, 2020
256
August, 2017
231
August, 2021
207
June, 2019
193
May, 2021
183
February, 2023
168
July, 2018
159
May, 2022
138
October, 2019
86
May, 2019
81
July, 2019
65
October, 2018
60
November, 2017
59
September, 2020
September, 2018
57
April, 2019
49
April, 2018
47
September, 2023
46
December, 2017
40
November, 2019
39
March, 2020
25
February, 2020
25
May, 2024
21
November, 2018
21
October, 2017
19
April, 2020
16
January, 2021
15
May, 2023
11
September, 2017
10
November, 2020
8
December, 2019
7
August, 2020
7
December, 2018
5
January, 2019
5
March, 2019
3
August, 2018
3
June, 2018
3
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2096
bam
1932
bigWig
1314
tsv
878
bed narrowPeak
640
fastq
522
bigBed narrowPeak
239
bed broadPeak
234
bed bed3+
217
bigBed broadPeak
181
tagAlign
157
txt
112
zippedFastqFolder
64
xls
17
hic
14
bedpe bed3+
7
csv
6
bed bed3
4
hdf5
3
cool
1
bedpe
1
tar
Organism
3265
Homo sapiens
Biosample type
2415
tissue
857
primary cell
641
cell line
339
in vitro differentiated cells
9
stem cell
Organ
678
pancreas
562
connective tissue
472
adipose tissue
323
liver
316
kidney
283
epithelium
276
heart
167
brain
159
bone element
141
vasculature
137
blood vessel
106
limb
77
musculature of body
69
artery
57
eye
35
nerve
21
spleen
20
lung
18
ureter
16
skeleton
16
vein
8
blood
8
bodily fluid
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
ovary
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2735
AMP
277
HPAP
193
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
1969
GRCh38
1956
hg19
Lab
2468
AMP-T2D consortium
277
Klaus Kaestner, Upenn
241
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
25
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
132
inconsistent ontology term
40
audit script error
27
inconsistent control
Audit category:
26
missing controlled_by
Audit category:
3
inconsistent control read length
2
inconsistent assembly
assay_slims!
DNA methylation
month_released!
September, 2018
organ_slims!
mammary gland
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
3272 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
292
34
68
6
1
7
4
3
1
4
adipose tissue
382
1
3
1
liver
167
103
20
1
2
1
1
1
kidney
49
17
75
64
13
6
1
1
bone element
84
+ See 117 more…
primary cell
Langerhans cell
85
48
monocyte
54
44
15
1
pancreatic alpha cell
42
9
32
12
1
pancreatic beta cell
11
9
19
12
1
exocrine cell
39
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