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Academic Journal

Metabolic modelling as a powerful tool to identify critical components of Pneumocystis growth medium.

  • Authors : Nev OA; Department of Biosciences, Faculty of Health and Life Sciences, University of Exeter, Exeter, United Kingdom.; Medical Research Council Centre for Medical Mycology at the University of Exeter, Exeter, United Kingdom.

Subjects: Culture Media*/Culture Media*/Culture Media*/chemistry ; Culture Media*/Culture Media*/Culture Media*/metabolism ; Models, Biological*

  • Source: PLoS computational biology [PLoS Comput Biol] 2024 Oct 28; Vol. 20 (10), pp. e1012545. Date of Electronic Publication: 2024 Oct 28 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Transient crosslinking kinetics optimize gene cluster interactions.

  • Authors : Walker B; Department of Mathematics, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, United States of America.; Taylor D

Subjects: Genome, Fungal* ; Models, Genetic* ; Multigene Family*

  • Source: PLoS computational biology [PLoS Comput Biol] 2019 Aug 21; Vol. 15 (8), pp. e1007124. Date of Electronic Publication: 2019 Aug 21 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Improving 3D Genome Reconstructions Using Orthologous and Functional Constraints.

  • Authors : Diament A; Dept. of Biomedical Engineering, Tel Aviv University, Tel Aviv, Israel.; Tuller T

Subjects: Genome, Fungal*; Computational Biology/Computational Biology/Computational Biology/*methods ; Image Processing, Computer-Assisted/Image Processing, Computer-Assisted/Image Processing, Computer-Assisted/*methods

  • Source: PLoS computational biology [PLoS Comput Biol] 2015 May 22; Vol. 11 (5), pp. e1004298. Date of Electronic Publication: 2015 May 22 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Comparative genome-scale reconstruction of gapless metabolic networks for present and ancestral species.

  • Authors : Pitkänen E; Department of Computer Science, University of Helsinki, Helsinki, Finland ; Department of Medical Genetics, Genome-Scale Biology Research Program, University of Helsinki, Helsinki, Finland.

Subjects: Genome, Fungal* ; Metabolic Networks and Pathways*/Metabolic Networks and Pathways*/Metabolic Networks and Pathways*/genetics; Fungi/Fungi/Fungi/*genetics

  • Source: PLoS computational biology [PLoS Comput Biol] 2014 Feb 06; Vol. 10 (2), pp. e1003465. Date of Electronic Publication: 2014 Feb 06 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Reconstruction and validation of a genome-scale metabolic model for the filamentous fungus Neurospora crassa using FARM.

  • Authors : Dreyfuss JM; Graduate Program in Bioinformatics, Boston University, Boston, Massachusetts, United States of America.; Zucker JD

Subjects: Genome, Fungal* ; Models, Biological*; Neurospora crassa/Neurospora crassa/Neurospora crassa/*genetics

  • Source: PLoS computational biology [PLoS Comput Biol] 2013; Vol. 9 (7), pp. e1003126. Date of Electronic Publication: 2013 Jul 18.Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: Print-Electronic Cited Medium: Internet

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Academic Journal

A comprehensive, quantitative, and genome-wide model of translation.

  • Authors : Siwiak M; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland.; Zielenkiewicz P

Subjects: Gene Expression Regulation* ; Genome, Fungal* ; Models, Genetic*

  • Source: PLoS computational biology [PLoS Comput Biol] 2010 Jul 29; Vol. 6 (7), pp. e1000865. Date of Electronic Publication: 2010 Jul 29.Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: Electronic Cited Medium: Internet

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Academic Journal

G-quadruplex DNA sequences are evolutionarily conserved and associated with distinct genomic features in Saccharomyces cerevisiae.

  • Authors : Capra JA; Department of Computer Science, Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, USA.; Paeschke K

Subjects: Conserved Sequence* ; G-Quadruplexes* ; Genome, Fungal*

  • Source: PLoS computational biology [PLoS Comput Biol] 2010 Jul 22; Vol. 6 (7), pp. e1000861. Date of Electronic Publication: 2010 Jul 22.Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: Electronic Cited Medium: Internet

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Academic Journal

Integrated assessment of genomic correlates of protein evolutionary rate.

  • Authors : Xia Y; Bioinformatics Program, Boston University, Boston, Massachusetts, USA. ; Franzosa EA

Subjects: Evolution, Molecular* ; Genome, Fungal* ; Models, Genetic*

  • Source: PLoS computational biology [PLoS Comput Biol] 2009 Jun; Vol. 5 (6), pp. e1000413. Date of Electronic Publication: 2009 Jun 12.Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: Print-Electronic Cited Medium: Internet

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Academic Journal

Evidence for gene-specific rather than transcription rate-dependent histone H3 exchange in yeast coding regions.

  • Authors : Gat-Viks I; Computational Molecular Biology Department, Max Planck Institute for Molecular Genetics, Berlin, Germany. ; Vingron M

Subjects: Genome, Fungal* ; Transcription, Genetic*; Chromatin Assembly and Disassembly/Chromatin Assembly and Disassembly/Chromatin Assembly and Disassembly/*genetics

  • Source: PLoS computational biology [PLoS Comput Biol] 2009 Feb; Vol. 5 (2), pp. e1000282. Date of Electronic Publication: 2009 Feb 06.Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: Print-Electronic Cited Medium: Internet

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Academic Journal

FunOrder: A robust and semi-automated method for the identification of essential biosynthetic genes through computational molecular co-evolution.

  • Authors : Vignolle GA; Institute of Chemical, Environmental and Bioscience Engineering, TU Wien, Vienna, Austria.; Schaffer D

Subjects: Evolution, Molecular* ; Genes, Essential* ; Multigene Family* Aspergillus terreus

  • Source: PLoS computational biology [PLoS Comput Biol] 2021 Sep 27; Vol. 17 (9), pp. e1009372. Date of Electronic Publication: 2021 Sep 27 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: eCollection Cited Medium: Internet

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