Perspectives and applications of machine learning for evolutionary developmental biology

Molecular Omics
Bruno César FeltesMárcio Dorn

Abstract

Evolutionary Developmental Biology (Evo-Devo) is an ever-expanding field that aims to understand how development was modulated by the evolutionary process. In this sense, "omic" studies emerged as a powerful ally to unravel the molecular mechanisms underlying development. In this scenario, bioinformatics tools become necessary to analyze the growing amount of information. Among computational approaches, machine learning stands out as a promising field to generate knowledge and trace new research perspectives for bioinformatics. In this review, we aim to expose the current advances of machine learning applied to evolution and development. We draw clear perspectives and argue how evolution impacted machine learning techniques.

References

Oct 23, 1997·Neural Computation·S Hochreiter, J Schmidhuber
May 14, 1999·Trends in Cognitive Sciences·R M French
Dec 11, 1999·Nucleic Acids Research·H M BermanP E Bourne
Mar 27, 2001·Nature Reviews. Genetics·R A Raff
Aug 16, 2002·Evolutionary Computation·Kenneth O Stanley, Risto Miikkulainen
Jan 22, 2004·Nature Reviews. Genetics·Albert-László Barabási, Zoltán N Oltvai
Apr 27, 2005·Journal of Bioinformatics and Computational Biology·Chris Ding, Hanchuan Peng
Sep 30, 2005·IEEE Transactions on Image Processing : a Publication of the IEEE Signal Processing Society·Feng NingPaolo Emilio Barbano
May 26, 2006·Applied Bioinformatics·Brett A McKinneyJason H Moore
Jul 29, 2006·Bioinformatics·Roy VarshavskyDavid Horn
Jul 29, 2006·Science·G E Hinton, R R Salakhutdinov
Jan 18, 2007·Journal of the National Cancer Institute·Alain Dupuy, Richard M Simon
Sep 19, 2007·Proteins·Solène GrosdidierJuan Fernández-Recio
Nov 7, 2007·Nature Reviews. Genetics·Gerd B Müller
Feb 5, 2008·IEEE/ACM Transactions on Computational Biology and Bioinformatics·Clare Bates CongdonCarolyn J Mattingly
Sep 24, 2008·Current Opinion in Genetics & Development·Eric Lécuyer, Pavel Tomancak
Oct 28, 2008·BMC Bioinformatics·Mohd Zeeshan AnsariDebasisa Mohanty
Dec 20, 2008·PLoS Genetics·Julien Roux, Marc Robinson-Rechavi
Feb 10, 2009·Artificial Life·Kenneth O StanleyJason Gauci
Apr 11, 2009·PLoS Computational Biology·Gitanjali YadavDebasisa Mohanty
Sep 1, 2009·Annual Review of Genomics and Human Genetics·Olena MorozovaMarco A Marra
Apr 15, 2010·Development·Tadanori Mammoto, Donald E Ingber
Aug 3, 2010·Toxicology·Zara HannounDavid C Hay
Nov 11, 2010·Nucleic Acids Research·Holger DinkelFrancesca Diella
Jul 14, 2011·Physical Biology·Michelangelo von Dassow, Lance A Davidson
Dec 21, 2011·Methods in Molecular Biology·Angela WilkinsOlivier Lichtarge
Jan 3, 2012·Seminars in Cell & Developmental Biology·Peter W HarrisonJudith E Mank
Apr 24, 2012·Trends in Ecology & Evolution·Alex T Kalinka, Pavel Tomancak
Jan 1, 2011·Wiley Interdisciplinary Reviews. Data Mining and Knowledge Discovery·Xiang ChenHeping Zhang
Jan 16, 2013·Annual Review of Entomology·Alison Heffer, Leslie Pick
Feb 13, 2013·Nature Reviews. Genetics·Zachary D Smith, Alexander Meissner
Jun 4, 2013·Methods : a Companion to Methods in Enzymology·Alexander Spirov, David Holloway
Jun 5, 2013·Cold Spring Harbor Perspectives in Biology·Richelle Sopko, Norbert Perrimon
Jun 6, 2013·Nucleic Acids Research·Kai BlinTilmann Weber
Jun 8, 2013·Nature Protocols·Steven A CombsJens Meiler
Jul 3, 2013·Genome Research·Jessica Alföldi, Kerstin Lindblad-Toh
Aug 3, 2013·Neuromolecular Medicine·Carole GwizdekStéphane Martin
Sep 21, 2013·Nature Reviews. Genetics·Callie Johnson Miller, Lance A Davidson
Sep 26, 2013·Briefings in Functional Genomics·Ozren Bogdanović, José Luis Gómez-Skarmeta
Jun 17, 2014·Bioinformatics·Michael K K LeungBrendan J Frey
Jun 24, 2014·Seminars in Cell & Developmental Biology·Paul François
Aug 29, 2014·Nature·Mark B GersteinRobert Waterston

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Citations

Jun 28, 2019·Frontiers in Bioengineering and Biotechnology·Lauren C RichardsonRandy S Murch
Jun 20, 2019·Frontiers in Bioengineering and Biotechnology·Jennifer L MantleKelvin H Lee
Jun 29, 2021·Frontiers in Physiology·Warren Burggren

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Methods Mentioned

BETA
glycosylation
protein folding
RNA-seq
sumoylation
acetylation
feature extraction

Software Mentioned

FFPred
Developmental Robotics (
GAMI
pyDock
Evo
ML
NeuroEvolution of Augmenting ( NEAT
PPRED
Eco
GRNEAT

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