DNA-protein quasi-mapping for rapid differential gene expression analysis in non-model organisms

Autor: Kyle Christian L. Santiago, Anish M. S. Shrestha

Publikováno v: BMC Bioinformatics, Vol 25, Iss S2, Pp 1-15 (2024)

Abstract Background Conventional differential gene expression analysis pipelines for non-model organisms require computationally expensive transcriptome assembly. We recently proposed an alternative strategy of directly aligning RNA-seq reads to a pr

Externí odkaz: https://doaj.org/article/be4eff8e04bf4b17b00e898db06e75f0

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Decoding the Functional Interactome of Non-Model Organisms with PHILHARMONIC.

Autor: Sledzieski S; Center for Computational Biology, Flatiron Institute, New York, NY, USA., Versavel C; Department of Computer Science, Tufts University, Medford MA, USA., Singh R; Departments of Biostatistics & Bioinformatics and Cell Biology, Duke University, Durham, NC, USA., Ocitti F; Department of Computer Science, Tufts University, Medford MA, USA., Devkota K; Departments of Biostatistics & Bioinformatics and Cell Biology, Duke University, Durham, NC, USA., Kumar L; Shoolini University, Solan, Himachal Pradesh-173229India., Shpilker P; Department of Computer Science, Tufts University, Medford MA, USA., Roger L; School of Molecular Sciences, Arizona State University, Phoenix, AZ, USA., Yang J; Department of Mechanical Engineering, Seoul National University, Seoul, South Korea., Lewinski N; Department of Chemical and Life Science Engineering, Virginia Commonwealth University, Richmond, VA, USA., Putnam H; Department of Biological Sciences, University of Rhode Island, Kingston, RI, USA., Berger B; Computer Science & Artificial Intelligence Laboratory and Department of Mathematics, MIT Cambridge, MA, USA., Klein-Seetharaman J; School of Molecular Sciences, Arizona State University, Phoenix, AZ, USA., Cowen L; Department of Computer Science, Tufts University, Medford MA, USA.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2024 Oct 29. Date of Electronic Publication: 2024 Oct 29.