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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1362
ChIP-seq
1144
total RNA-seq
289
ATAC-seq
180
DNase-seq
180
single cell RNA-seq
87
RNA microarray
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
snDrop-seq
2
Capture-C
2
HiChIP
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
GRO-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1362
DNA binding
1344
Transcription
501
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
668
histone modification
667
histone
455
transcription factor
344
narrow histone mark
323
broad histone mark
271
control
93
RNA binding protein
89
recombinant protein
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
640
February, 2021
382
November, 2017
284
August, 2017
273
August, 2021
268
October, 2019
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
101
February, 2023
80
April, 2019
80
November, 2018
77
July, 2019
74
October, 2018
66
May, 2022
60
May, 2021
56
November, 2019
49
December, 2017
47
September, 2023
40
May, 2024
33
December, 2018
27
March, 2020
25
February, 2020
24
January, 2019
23
October, 2017
19
April, 2020
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
4
January, 2018
4
March, 2023
3
December, 2019
1
August, 2022
1
October, 2022
Available data
2460
bam
2265
bigWig
1358
bed narrowPeak
1170
tsv
884
bigBed narrowPeak
776
fastq
268
bed broadPeak
258
tagAlign
231
bigBed broadPeak
210
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
3367
Homo sapiens
Biosample type
2750
tissue
primary cell
626
cell line
in vitro differentiated cells
6
stem cell
Organ
737
liver
596
pancreas
546
connective tissue
487
adipose tissue
376
heart
316
kidney
263
brain
198
blood vessel
198
vasculature
158
bone element
139
artery
122
limb
94
epithelium
81
musculature of body
52
eye
51
blood
51
bodily fluid
43
nerve
24
spleen
19
lung
18
ureter
16
skeleton
8
embryo
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
pericardium
1
skin of body
1
spinal cord
Project
3273
AMP
47
KPMP
39
T1D
19
LungMap
4
community
Genome assembly (visualization)
2296
GRCh38
2255
hg19
1
hg18
Lab
2982
AMP-T2D consortium
142
Katalin Susztak, Upenn
56
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.
4
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
179
inconsistent ontology term
25
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
33
missing controlled_by
Audit category:
23
inconsistent control read length
2
inconsistent assembly
target.investigated_as!
chromatin remodeller
biosample_type!
in vitro differentiated cells
primary cell
assay_title!
pCHi-C
BIOSAMPLE
ASSAY
3382 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
snATAC-seq
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR RNA-seq
CRISPR genome editing followed by sgRNA sequencing
...and 6 more
tissue
islet of Langerhans
71
292
68
1
6
7
3
1
4
1
adipose tissue
2
382
3
3
liver
143
167
20
2
1
3
1
1
1
kidney
27
49
75
13
64
6
1
1
1
bone element
84
+ See 167 more…
cell line
HepG2
358
14
1
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
50
1
Panc1
13
1
1
+ See 11 more…
stem cell
hESC
3
SB Ad3.1
1
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