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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
896
total RNA-seq
161
DNase-seq
122
ATAC-seq
60
ChIP-seq
16
small RNA-seq
11
Hi-C
9
RRBS
6
single cell RNA-seq
4
FAIRE-seq
1
snATAC-seq
Assay category
918
Transcription
288
DNA accessibility
60
DNA binding
11
3D chromatin structure
9
DNA methylation
Target of assay
histone modification
432
histone
237
narrow histone mark
195
broad histone mark
57
transcription factor
20
RNA binding protein
3
control
3
other context
3
other post-translational modification
Date released
452
February, 2021
147
June, 2019
143
May, 2020
120
August, 2017
116
July, 2018
60
July, 2019
40
November, 2019
39
May, 2022
38
May, 2021
33
February, 2023
December, 2017
17
November, 2018
16
March, 2020
16
October, 2019
15
October, 2018
7
October, 2017
6
April, 2018
5
April, 2019
4
May, 2019
3
December, 2018
3
March, 2019
2
January, 2018
2
September, 2017
1
August, 2021
1
May, 2023
Available data
1203
bam
1180
bigWig
918
tsv
313
bed narrowPeak
202
bigBed narrowPeak
190
fastq
177
bed bed3+
161
bed broadPeak
160
bigBed broadPeak
11
hic
9
bed bedMethyl
9
bedpe bed3+
9
bigBed bedMethyl
5
bed bed3
1
bedpe
1
txt
Organism
1286
Homo sapiens
Biosample type
1286
tissue
493
cell line
398
primary cell
205
in vitro differentiated cells
Organ
480
connective tissue
422
adipose tissue
348
pancreas
187
liver
72
kidney
70
bone element
53
heart
48
limb
42
musculature of body
30
eye
29
brain
18
ureter
16
blood vessel
16
vasculature
12
epithelium
12
skeleton
8
spleen
7
artery
7
nerve
1
pericardium
Project
1286
AMP
Genome assembly (visualization)
1334
GRCh38
1286
hg19
Lab
1243
AMP-T2D consortium
20
Karen Mohlke, UNC
18
Kyle Gaulton, UCSD
2
Bing Ren, UCSD
1
Katalin Susztak, Upenn
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
2
inconsistent ontology term
1
audit script error
Audit category:
18
missing controlled_by
assay_slims!
DNA sequencing
month_released!
December, 2017
target.investigated_as!
histone modification
BIOSAMPLE
ASSAY
1286 results
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total RNA-seq
DNase-seq
ATAC-seq
ChIP-seq
small RNA-seq
Hi-C
RRBS
single cell RNA-seq
FAIRE-seq
snATAC-seq
tissue
adipose tissue
382
3
islet of Langerhans
260
1
42
9
2
1
6
1
liver
147
2
20
9
1
1
1
bone tissue
58
heart
4
16
1
1
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