Literature DB >> 32544775

Prime time for primate functional genomics.

Genevieve Housman1, Yoav Gilad2.   

Abstract

Functional genomics research is continually improving our understanding of genotype-phenotype relationships in humans, and comparative genomics perspectives can provide additional insight into the evolutionary histories of such relationships. To specifically identify conservation or species-specific divergence in humans, we must look to our closest extant evolutionary relatives. Primate functional genomics research has been steadily advancing and expanding, in spite of several limitations and challenges that this field faces. New technologies and cheaper sequencing provide a unique opportunity to enhance and expand primate comparative studies, and we outline possible paths going forward. The potential human-specific insights that can be gained from primate functional genomics research are substantial, and we propose that now is a prime time to expand such endeavors.
Copyright © 2020 Elsevier Ltd. All rights reserved.

Entities:  

Year:  2020        PMID: 32544775      PMCID: PMC8170550          DOI: 10.1016/j.gde.2020.04.007

Source DB:  PubMed          Journal:  Curr Opin Genet Dev        ISSN: 0959-437X            Impact factor:   5.578


  45 in total

1.  Social history and exposure to pathogen signals modulate social status effects on gene regulation in rhesus macaques.

Authors:  Joaquín Sanz; Paul L Maurizio; Noah Snyder-Mackler; Noah D Simons; Tawni Voyles; Jordan Kohn; Vasiliki Michopoulos; Mark Wilson; Jenny Tung; Luis B Barreiro
Journal:  Proc Natl Acad Sci U S A       Date:  2019-10-14       Impact factor: 11.205

2.  Evolution of DNA Methylation in Papio Baboons.

Authors:  Tauras P Vilgalys; Jeffrey Rogers; Clifford J Jolly; Sayan Mukherjee; Jenny Tung
Journal:  Mol Biol Evol       Date:  2019-03-01       Impact factor: 16.240

3.  Identification of coordinately regulated microRNA-gene networks that differ in baboons discordant for LDL-cholesterol.

Authors:  Genesio M Karere; Jeremy P Glenn; Shifra Birnbaum; Roy Garcia; John L VandeBerg; Laura A Cox
Journal:  PLoS One       Date:  2019-03-15       Impact factor: 3.240

4.  Silencing of transposable elements may not be a major driver of regulatory evolution in primate iPSCs.

Authors:  Michelle C Ward; Siming Zhao; Kaixuan Luo; Bryan J Pavlovic; Mohammad M Karimi; Matthew Stephens; Yoav Gilad
Journal:  Elife       Date:  2018-04-12       Impact factor: 8.140

5.  Somatic coding mutations in human induced pluripotent stem cells.

Authors:  Athurva Gore; Zhe Li; Ho-Lim Fung; Jessica E Young; Suneet Agarwal; Jessica Antosiewicz-Bourget; Isabel Canto; Alessandra Giorgetti; Mason A Israel; Evangelos Kiskinis; Je-Hyuk Lee; Yuin-Han Loh; Philip D Manos; Nuria Montserrat; Athanasia D Panopoulos; Sergio Ruiz; Melissa L Wilbert; Junying Yu; Ewen F Kirkness; Juan Carlos Izpisua Belmonte; Derrick J Rossi; James A Thomson; Kevin Eggan; George Q Daley; Lawrence S B Goldstein; Kun Zhang
Journal:  Nature       Date:  2011-03-03       Impact factor: 49.962

6.  Gene expression and adaptive noncoding changes during human evolution.

Authors:  Courtney C Babbitt; Ralph Haygood; William J Nielsen; Gregory A Wray
Journal:  BMC Genomics       Date:  2017-06-05       Impact factor: 3.969

7.  Dominance rank-associated gene expression is widespread, sex-specific, and a precursor to high social status in wild male baboons.

Authors:  Amanda J Lea; Mercy Y Akinyi; Ruth Nyakundi; Peter Mareri; Fred Nyundo; Thomas Kariuki; Susan C Alberts; Elizabeth A Archie; Jenny Tung
Journal:  Proc Natl Acad Sci U S A       Date:  2018-12-11       Impact factor: 11.205

8.  Unlocking the secrets of the genome.

Authors:  Susan E Celniker; Laura A L Dillon; Mark B Gerstein; Kristin C Gunsalus; Steven Henikoff; Gary H Karpen; Manolis Kellis; Eric C Lai; Jason D Lieb; David M MacAlpine; Gos Micklem; Fabio Piano; Michael Snyder; Lincoln Stein; Kevin P White; Robert H Waterston
Journal:  Nature       Date:  2009-06-18       Impact factor: 49.962

9.  An integrated encyclopedia of DNA elements in the human genome.

Authors: 
Journal:  Nature       Date:  2012-09-06       Impact factor: 49.962

10.  Human fibroblasts display a differential focal adhesion phenotype relative to chimpanzee.

Authors:  Alexander S Advani; Annie Y Chen; Courtney C Babbitt
Journal:  Evol Med Public Health       Date:  2016-03-23
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  4 in total

1.  An evolutionary perspective of DNA methylation patterns in skeletal tissues using a baboon model of osteoarthritis.

Authors:  Genevieve Housman; Ellen E Quillen; Anne C Stone
Journal:  J Orthop Res       Date:  2020-12-29       Impact factor: 3.102

2.  A non-invasive method to generate induced pluripotent stem cells from primate urine.

Authors:  Johanna Geuder; Lucas E Wange; Aleksandar Janjic; Jessica Radmer; Philipp Janssen; Johannes W Bagnoli; Stefan Müller; Artur Kaul; Mari Ohnuki; Wolfgang Enard
Journal:  Sci Rep       Date:  2021-02-10       Impact factor: 4.379

3.  Divergence in alternative polyadenylation contributes to gene regulatory differences between humans and chimpanzees.

Authors:  Briana E Mittleman; Sebastian Pott; Shane Warland; Kenneth Barr; Claudia Cuevas; Yoav Gilad
Journal:  Elife       Date:  2021-02-17       Impact factor: 8.140

4.  Evolutionary insights into primate skeletal gene regulation using a comparative cell culture model.

Authors:  Genevieve Housman; Emilie Briscoe; Yoav Gilad
Journal:  PLoS Genet       Date:  2022-03-09       Impact factor: 5.917

  4 in total

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