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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1333
ChIP-seq
1150
total RNA-seq
289
ATAC-seq
174
single cell RNA-seq
87
RNA microarray
31
pCHi-C
28
WGBS
28
snATAC-seq
20
Hi-C
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
3
DNase-seq
3
snDrop-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1342
Transcription
1333
DNA binding
324
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
652
histone modification
651
histone
411
transcription factor
337
narrow histone mark
314
broad histone mark
270
control
89
RNA binding protein
89
recombinant protein
28
chromatin remodeller
5
nucleotide modification
4
other context
4
other post-translational modification
Date released
641
February, 2021
339
November, 2017
284
August, 2017
273
August, 2021
267
October, 2019
194
May, 2020
120
July, 2018
115
May, 2019
101
February, 2023
80
April, 2019
78
November, 2018
77
July, 2019
74
October, 2018
66
May, 2022
61
May, 2021
56
November, 2019
51
March, 2020
48
December, 2017
47
September, 2023
40
May, 2024
35
December, 2018
30
January, 2019
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2489
bam
2294
bigWig
1388
bed narrowPeak
1195
tsv
916
bigBed narrowPeak
804
fastq
272
bed broadPeak
258
tagAlign
bigBed broadPeak
208
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
3191
Homo sapiens
Biosample type
2601
tissue
1039
primary cell
603
cell line
393
in vitro differentiated cells
10
stem cell
Organ
701
liver
590
pancreas
545
connective tissue
486
adipose tissue
352
heart
250
kidney
238
brain
194
blood vessel
194
vasculature
158
bone element
135
artery
94
epithelium
86
limb
61
blood
61
bodily fluid
53
eye
50
musculature of body
41
nerve
24
spleen
20
lung
16
skeleton
8
embryo
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
3096
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2102
GRCh38
2066
hg19
Lab
2805
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
38
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
182
inconsistent ontology term
28
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
19
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
files.file_type!
bigBed broadPeak
BIOSAMPLE
ASSAY
3204 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
RNA microarray
pCHi-C
WGBS
snATAC-seq
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
DNase-seq
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
...and 4 more
tissue
islet of Langerhans
71
298
68
4
7
3
1
4
1
1
adipose tissue
2
382
3
1
3
liver
145
167
20
1
1
3
1
1
1
kidney
27
49
75
64
6
1
1
1
bone element
84
+ See 159 more…
cell line
HepG2
320
14
1
2
1
2
2
EndoC_BH1
15
33
19
1
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
+ See 14 more…
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