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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1325
ChIP-seq
1137
total RNA-seq
281
ATAC-seq
180
single cell RNA-seq
126
DNase-seq
87
RNA microarray
31
pCHi-C
28
snATAC-seq
27
WGBS
16
small RNA-seq
15
Hi-C
11
RRBS
10
MeRIP-seq
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
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
1335
Transcription
1325
DNA binding
439
DNA accessibility
38
DNA methylation
15
3D chromatin structure
1
DNA sequencing
Target of assay
617
histone modification
616
histone
455
transcription factor
328
narrow histone mark
288
broad histone mark
253
control
93
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
635
February, 2021
397
November, 2017
284
August, 2017
273
August, 2021
203
October, 2019
194
May, 2020
120
July, 2018
113
June, 2019
108
May, 2019
101
February, 2023
87
November, 2018
80
April, 2019
74
October, 2018
72
July, 2019
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
23
October, 2017
22
February, 2020
19
April, 2020
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
4
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2357
bam
2185
bigWig
1278
bed narrowPeak
1188
tsv
814
bigBed narrowPeak
804
fastq
258
tagAlign
218
bed broadPeak
181
bigBed broadPeak
158
txt
154
bed bed3+
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
bed bed3
6
csv
3
tar
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
3285
Homo sapiens
Biosample type
2636
tissue
1088
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
762
liver
596
pancreas
547
connective tissue
488
adipose tissue
379
heart
318
kidney
265
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
limb
94
epithelium
82
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
25
spleen
20
lung
ureter
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
3190
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2209
GRCh38
2170
hg19
Lab
2900
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
37
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:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
files.file_type!
bedpe
organ_slims!
limb
ureter
BIOSAMPLE
ASSAY
3298 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
pCHi-C
snATAC-seq
WGBS
small RNA-seq
Hi-C
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
...and 4 more
tissue
islet of Langerhans
70
292
68
6
1
4
7
2
1
4
1
adipose tissue
2
382
3
1
3
liver
145
167
20
1
2
1
3
1
1
1
kidney
27
49
75
64
13
6
1
1
1
bone element
84
+ See 160 more…
cell line
HepG2
378
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
1
+ See 14 more…
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