Literature DB >> 33585410

High Quality Aspergillus aculeatus Genomes and Transcriptomes: A Platform for Cellulase Activity Optimization Toward Industrial Applications.

Wuttichai Mhuantong1, Salisa Charoensri1, Aphisit Poonsrisawat1, Wirulda Pootakham2, Sithichoke Tangphatsornruang2, Chatuphon Siamphan1, Surisa Suwannarangsee1, Lily Eurwilaichitr1, Verawat Champreda1, Varodom Charoensawan3,4,5, Duriya Chantasingh1.   

Abstract

Entities:  

Keywords:  cellulolytic enzyme activities; de novo assembly; genome sequencing; plant biomass degradation; transcriptome sequencing

Year:  2021        PMID： 33585410      PMCID： PMC7873481          DOI： 10.3389/fbioe.2020.607176

Source DB:  PubMed          Journal:  Front Bioeng Biotechnol        ISSN： 2296-4185


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  45 in total

1.  Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype.

Authors:  Daehwan Kim; Joseph M Paggi; Chanhee Park; Christopher Bennett; Steven L Salzberg
Journal:  Nat Biotechnol       Date:  2019-08-02       Impact factor: 54.908

2.  Database resources of the National Center for Biotechnology Information.

Authors:  David L Wheeler; Tanya Barrett; Dennis A Benson; Stephen H Bryant; Kathi Canese; Vyacheslav Chetvernin; Deanna M Church; Michael DiCuccio; Ron Edgar; Scott Federhen; Lewis Y Geer; Yuri Kapustin; Oleg Khovayko; David Landsman; David J Lipman; Thomas L Madden; Donna R Maglott; James Ostell; Vadim Miller; Kim D Pruitt; Gregory D Schuler; Edwin Sequeira; Steven T Sherry; Karl Sirotkin; Alexandre Souvorov; Grigory Starchenko; Roman L Tatusov; Tatiana A Tatusova; Lukas Wagner; Eugene Yaschenko
Journal:  Nucleic Acids Res       Date:  2006-12-14       Impact factor: 16.971

3.  InterProScan 5: genome-scale protein function classification.

Authors:  Philip Jones; David Binns; Hsin-Yu Chang; Matthew Fraser; Weizhong Li; Craig McAnulla; Hamish McWilliam; John Maslen; Alex Mitchell; Gift Nuka; Sebastien Pesseat; Antony F Quinn; Amaia Sangrador-Vegas; Maxim Scheremetjew; Siew-Yit Yong; Rodrigo Lopez; Sarah Hunter
Journal:  Bioinformatics       Date:  2014-01-21       Impact factor: 6.937

4.  HMMER web server: 2018 update.

Authors:  Simon C Potter; Aurélien Luciani; Sean R Eddy; Youngmi Park; Rodrigo Lopez; Robert D Finn
Journal:  Nucleic Acids Res       Date:  2018-07-02       Impact factor: 16.971

5.  fastp: an ultra-fast all-in-one FASTQ preprocessor.

Authors:  Shifu Chen; Yanqing Zhou; Yaru Chen; Jia Gu
Journal:  Bioinformatics       Date:  2018-09-01       Impact factor: 6.937

6.  UniProt: a worldwide hub of protein knowledge.

Authors: 
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

7.  AmiGO: online access to ontology and annotation data.

Authors:  Seth Carbon; Amelia Ireland; Christopher J Mungall; ShengQiang Shu; Brad Marshall; Suzanna Lewis
Journal:  Bioinformatics       Date:  2008-11-25       Impact factor: 6.937

8.  Full-length transcriptome assembly from RNA-Seq data without a reference genome.

Authors:  Manfred G Grabherr; Brian J Haas; Moran Yassour; Joshua Z Levin; Dawn A Thompson; Ido Amit; Xian Adiconis; Lin Fan; Raktima Raychowdhury; Qiandong Zeng; Zehua Chen; Evan Mauceli; Nir Hacohen; Andreas Gnirke; Nicholas Rhind; Federica di Palma; Bruce W Birren; Chad Nusbaum; Kerstin Lindblad-Toh; Nir Friedman; Aviv Regev
Journal:  Nat Biotechnol       Date:  2011-05-15       Impact factor: 54.908

9.  Pfam: the protein families database.

Authors:  Robert D Finn; Alex Bateman; Jody Clements; Penelope Coggill; Ruth Y Eberhardt; Sean R Eddy; Andreas Heger; Kirstie Hetherington; Liisa Holm; Jaina Mistry; Erik L L Sonnhammer; John Tate; Marco Punta
Journal:  Nucleic Acids Res       Date:  2013-11-27       Impact factor: 16.971

10.  Gene3D: Extensive prediction of globular domains in proteins.

Authors:  Tony E Lewis; Ian Sillitoe; Natalie Dawson; Su Datt Lam; Tristan Clarke; David Lee; Christine Orengo; Jonathan Lees
Journal:  Nucleic Acids Res       Date:  2018-01-04       Impact factor: 16.971
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