Literature DB >> 26438418

Discretization of gene expression data revised.

Cristian A Gallo, Rocio L Cecchini, Jessica A Carballido, Sandra Micheletto, Ignacio Ponzoni.   

Abstract

Gene expression measurements represent the most important source of biological data used to unveil the interaction and functionality of genes. In this regard, several data mining and machine learning algorithms have been proposed that require, in a number of cases, some kind of data discretization to perform the inference. Selection of an appropriate discretization process has a major impact on the design and outcome of the inference algorithms, as there are a number of relevant issues that need to be considered. This study presents a revision of the current state-of-the-art discretization techniques, together with the key subjects that need to be considered when designing or selecting a discretization approach for gene expression data.
© The Author 2015. Published by Oxford University Press. For Permissions, please email: journals.permissions@oup.com.

Entities:  

Keywords:  data mining; data preprocessing; discretization; gene expression analysis; gene expression data; machine learning

Mesh:

Year:  2015        PMID: 26438418     DOI: 10.1093/bib/bbv074

Source DB:  PubMed          Journal:  Brief Bioinform        ISSN: 1467-5463            Impact factor:   11.622


  12 in total

1.  A multivariate statistical test for differential expression analysis.

Authors:  Michele Tumminello; Giorgio Bertolazzi; Gianluca Sottile; Nicolina Sciaraffa; Walter Arancio; Claudia Coronnello
Journal:  Sci Rep       Date:  2022-05-18       Impact factor: 4.996

Review 2.  Artificial Intelligence in Bulk and Single-Cell RNA-Sequencing Data to Foster Precision Oncology.

Authors:  Marco Del Giudice; Serena Peirone; Sarah Perrone; Francesca Priante; Fabiola Varese; Elisa Tirtei; Franca Fagioli; Matteo Cereda
Journal:  Int J Mol Sci       Date:  2021-04-27       Impact factor: 5.923

3.  A Bayesian Framework for the Classification of Microbial Gene Activity States.

Authors:  Craig Disselkoen; Brian Greco; Kaitlyn Cook; Kristin Koch; Reginald Lerebours; Chase Viss; Joshua Cape; Elizabeth Held; Yonatan Ashenafi; Karen Fischer; Allyson Acosta; Mark Cunningham; Aaron A Best; Matthew DeJongh; Nathan Tintle
Journal:  Front Microbiol       Date:  2016-08-09       Impact factor: 5.640

4.  Rewiring of the inferred protein interactome during blood development studied with the tool PPICompare.

Authors:  Thorsten Will; Volkhard Helms
Journal:  BMC Syst Biol       Date:  2017-04-04

5.  Designing miRNA-Based Synthetic Cell Classifier Circuits Using Answer Set Programming.

Authors:  Katinka Becker; Hannes Klarner; Melania Nowicka; Heike Siebert
Journal:  Front Bioeng Biotechnol       Date:  2018-06-22

6.  Associating expression and genomic data using co-occurrence measures.

Authors:  Maarten Larmuseau; Lieven P C Verbeke; Kathleen Marchal
Journal:  Biol Direct       Date:  2019-05-09       Impact factor: 4.540

7.  eXplainable Artificial Intelligence (XAI) for the identification of biologically relevant gene expression patterns in longitudinal human studies, insights from obesity research.

Authors:  Augusto Anguita-Ruiz; Alberto Segura-Delgado; Rafael Alcalá; Concepción M Aguilera; Jesús Alcalá-Fdez
Journal:  PLoS Comput Biol       Date:  2020-04-10       Impact factor: 4.475

8.  In silico-driven analysis of the Glossina morsitans morsitans antennae transcriptome in response to repellent or attractant compounds.

Authors:  Consolata Gakii; Billiah Kemunto Bwana; Grace Gathoni Mugambi; Esther Mukoya; Paul O Mireji; Richard Rimiru
Journal:  PeerJ       Date:  2021-07-01       Impact factor: 2.984

9.  Complementing ODE-Based System Analysis Using Boolean Networks Derived from an Euler-Like Transformation.

Authors:  Claudia Stötzel; Susanna Röblitz; Heike Siebert
Journal:  PLoS One       Date:  2015-10-23       Impact factor: 3.240

10.  Evaluating Uncertainty in Signaling Networks Using Logical Modeling.

Authors:  Kirsten Thobe; Christina Kuznia; Christine Sers; Heike Siebert
Journal:  Front Physiol       Date:  2018-10-09       Impact factor: 4.566

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