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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
888
total RNA-seq
828
ChIP-seq
260
ATAC-seq
180
single cell RNA-seq
87
RNA microarray
27
WGBS
27
snATAC-seq
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1084
Transcription
828
DNA binding
293
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
588
histone modification
587
histone
297
broad histone mark
290
narrow histone mark
161
control
81
transcription factor
26
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
258
August, 2017
237
October, 2019
229
August, 2021
May, 2020
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
77
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
19
April, 2020
17
November, 2018
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
5
March, 2019
4
November, 2020
4
September, 2017
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1714
bam
1602
bigWig
957
bed narrowPeak
933
tsv
561
bigBed narrowPeak
377
fastq
213
bed broadPeak
bed bed3+
188
tagAlign
176
bigBed broadPeak
157
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
tagAlign bed3+
Organism
2369
Homo sapiens
Biosample type
2378
tissue
904
primary cell
658
cell line
369
in vitro differentiated cells
7
stem cell
Organ
541
connective tissue
482
adipose tissue
478
pancreas
286
heart
237
brain
231
kidney
162
liver
158
bone element
128
blood vessel
128
vasculature
86
limb
69
artery
53
eye
49
musculature of body
41
nerve
24
spleen
20
lung
16
skeleton
15
epithelium
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
2281
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1492
GRCh38
1395
hg19
Lab
2026
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
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
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
90
inconsistent ontology term
27
inconsistent control
8
audit script error
Audit category:
12
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed bed3+
tagAlign bed3+
month_released!
May, 2020
BIOSAMPLE
ASSAY
2378 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
292
50
68
6
7
4
3
1
1
4
1
adipose tissue
382
2
3
3
1
kidney
49
27
75
64
6
1
1
1
liver
24
92
20
1
3
1
1
1
1
bone element
84
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