Literature DB >> 35552462

A soybean non-coding RNA mining and co-expression resource based on 1,596 RNA-seq and small RNA-seq libraries.

Xueai Zhu1,2, Baoyi Zhang1,2, Fanqi Gao1, Fang Huang1,3, Hongsheng Zhang1,2, Ji Huang1,2,4.   

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Year:  2022        PMID： 35552462      PMCID： PMC9342965          DOI： 10.1093/plphys/kiac222

Source DB:  PubMed          Journal:  Plant Physiol        ISSN： 0032-0889            Impact factor:   8.005


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  16 in total

1.  Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification.

Authors:  Itai Yanai; Hila Benjamin; Michael Shmoish; Vered Chalifa-Caspi; Maxim Shklar; Ron Ophir; Arren Bar-Even; Shirley Horn-Saban; Marilyn Safran; Eytan Domany; Doron Lancet; Orit Shmueli
Journal:  Bioinformatics       Date:  2004-09-23       Impact factor: 6.937

2.  featureCounts: an efficient general purpose program for assigning sequence reads to genomic features.

Authors:  Yang Liao; Gordon K Smyth; Wei Shi
Journal:  Bioinformatics       Date:  2013-11-13       Impact factor: 6.937

3.  A new decade and new data at SoyBase, the USDA-ARS soybean genetics and genomics database.

Authors:  Anne V Brown; Shawn I Conners; Wei Huang; Andrew P Wilkey; David Grant; Nathan T Weeks; Steven B Cannon; Michelle A Graham; Rex T Nelson
Journal:  Nucleic Acids Res       Date:  2020-12-02       Impact factor: 16.971

Review 4.  Small RNAs: Big Impact on Plant Development.

Authors:  Marco D'Ario; Sam Griffiths-Jones; Minsung Kim
Journal:  Trends Plant Sci       Date:  2017-10-12       Impact factor: 18.313

5.  The Soybean Genome Database (SoyGD): a browser for display of duplicated, polyploid, regions and sequence tagged sites on the integrated physical and genetic maps of Glycine max.

Authors:  Jeffry L Shultz; Deepak Kurunam; Kay Shopinski; M Javed Iqbal; Samreen Kazi; Kimberley Zobrist; Rabia Bashir; Satsuki Yaegashi; Nagajyothi Lavu; Ahmed J Afzal; Charles R Yesudas; M Abdelmajid Kassem; Chengcang Wu; Hong Bin Zhang; Christopher D Town; Khalid Meksem; David A Lightfoot
Journal:  Nucleic Acids Res       Date:  2006-01-01       Impact factor: 16.971

6.  Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.

Authors:  Michael I Love; Wolfgang Huber; Simon Anders
Journal:  Genome Biol       Date:  2014       Impact factor: 13.583

7.  PNRD: a plant non-coding RNA database.

Authors:  Xin Yi; Zhenhai Zhang; Yi Ling; Wenying Xu; Zhen Su
Journal:  Nucleic Acids Res       Date:  2014-11-14       Impact factor: 16.971

8.  A benchmark of gene expression tissue-specificity metrics.

Authors:  Nadezda Kryuchkova-Mostacci; Marc Robinson-Rechavi
Journal:  Brief Bioinform       Date:  2017-03-01       Impact factor: 11.622

9.  PLncDB V2.0: a comprehensive encyclopedia of plant long noncoding RNAs.

Authors:  Jingjing Jin; Peng Lu; Yalong Xu; Zefeng Li; Shizhou Yu; Jun Liu; Huan Wang; Nam-Hai Chua; Peijian Cao
Journal:  Nucleic Acids Res       Date:  2021-01-08       Impact factor: 16.971

10.  Soybean knowledge base (SoyKB): a web resource for integration of soybean translational genomics and molecular breeding.

Authors:  Trupti Joshi; Michael R Fitzpatrick; Shiyuan Chen; Yang Liu; Hongxin Zhang; Ryan Z Endacott; Eric C Gaudiello; Gary Stacey; Henry T Nguyen; Dong Xu
Journal:  Nucleic Acids Res       Date:  2013-10-16       Impact factor: 16.971
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