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About This Database

Soybean transciptome data

Data description
Data name
Soybean transciptome data
DOI
10.18908/lsdba.nbdc00238-005
Description of data contents
Samples are collected from soybean in different flood conditions and time course. mRNA are sequenced twice with HiCEP(High-Coverage Expression Profiling) method and clusetered. The graph of 2nd clustering result is in TranscriptProf.pdf.
Data file
File name :
soybean_transcript.zip
File URL :
File size :
1.2 MB
Simple search URL
https://togodb.biosciencedbc.jp/togodb/view/soybean_transcript#en
Data acquisition method

Sequencing with HiCEP(High-Coverage Expression Profiling) method
Data analysis method

Clusetering
Number of data entries

29,388 entries
Data detail
Data item Description
Primer

HiCEP primer set (5' end - 3' end)
Peak No

Peak number of DNA sequences identified by sequencer
2(0) Height min

Sample: 2 days after seeding, 0 days after floodingMinimum peak value in sequencing
2(0) Height max

Sample: 2 days after seeding, 0 days after floodingMaximum peak value in sequencing
2.5(0) Height min

Sample: 2.5 days after seeding, 0 days after flooding (control)Minimum peak value in sequencing
2.5(0) Height max

Sample: 2.5 days after seeding, 0 days after flooding (control)Maximum peak value in sequencing
2.5(0.5) Height min

Sample: 2.5 days after seeding, 0.5 days after floodingMinimum peak value in sequencing
2.5(0.5) Height max

Sample: 2.5 days after seeding, 0.5 days after floodingMaximum peak value in sequencing
3(0) Height min

Sample: 3 days after seeding, 0 days after flooding (control)Minimum peak value in sequencing
3(0) Height max

Sample: 3 days after seeding, 0 days after flooding (control)Maximum peak value in sequencing
3(1) Height min

Sample: 3 days after seeding, 1 days after floodingMinimum peak value in sequencing
3(1) Height max

Sample: 3 days after seeding, 1 days after floodingMaximum peak value in sequencing
3.5(0) Height min

Sample: 3.5 days after seeding, 0 days after flooding (control)Minimum peak value in sequencing
3.5(0) Height max

Sample: 3.5 days after seeding, 0 days after flooding (control)Maximum peak value in sequencing
3.5(1.5) Height min

Sample: 3.5 days after seeding, 1.5 days after floodingMinimum peak value in sequencing
3.5(1.5) Height max

Sample: 3.5 days after seeding, 1.5 days after floodingMaximum peak value in sequencing
4(0) Height min

Sample: 4 days after seeding, 0 days after flooding (control)Minimum peak value in sequencing
4(0) Height max

Sample: 4 days after seeding, 0 days after flooding (control)Maximum peak value in sequencing
4(2) Height min

Sample: 4 days after seeding, 2 days after floodingMinimum peak value in sequencing
4(2) Height max

Sample: 4 days after seeding, 2 days after floodingMaximum peak value in sequencing
Size min

Minimum molecular weight of DNA in seuquencing
Size max

Maximum molecular weight of DNA in seuquencing
1_Cluster_No

Cluseter number of 1st clustering (0-31)
2_Cluster_No

Cluseter number of 2nd clustering (1-65)Target records are filtered in the following conditions:・Classified in "31" of 1st clutering・max peak / min peak > 3
3_Peak_No

Graph number in "Soybean omics data"Target records are filtered in the following conditions:・peak value in treated / peak value in control > 20