Bronze Contributor

6,190 Points

Contributions by role

Contributions by subject area

Bronze Contributor

Mikhail S Gelfand

PeerJ Editor, Author & Reviewer

Summary

Vice-Director for Science at the Kharkevich Institute for Information Transmission Problems. Professor of the Lomonosov Moscow State University, Skolkovo Institute of Science and Technology, and Higher School of Economics. Member of Academia Europaea. Recipient of the 2007 Baev Prize of the Russian Academy of Sciences. Member of Editorial Boards of PeerJ and Biology Direct.

Bioinformatics Computational Biology Evolutionary Studies Genomics

Editing Journals

PeerJ - the Journal of Life & Environmental Sciences

Past or current institution affiliations

Higher School of Economics

Moscow State University

Work details

Vice-Director for Science

Kharkevich Institute for Information Transmission Problems

Research and Training Center "Bioinformatics"

Research interests: - comparative genomics - metagenomics - metabolic reconstruction and functional annotation of genes and proteins - identification of regulatory signals - evolution of metabolic pathways and regulatory systems - alternative splicing - statistics of DNA sequences

Websites

ResearchGate

PeerJ Contributions

December 2, 2020

Phospho-islands and the evolution of phosphorylated amino acids in mammals

Mikhail Moldovan, Mikhail S. Gelfand

https://doi.org/10.7717/peerj.10436 PubMed 33344082

November 30, 2020

A machine learning framework for the prediction of chromatin folding in Drosophila using epigenetic features

Michal B. Rozenwald, Aleksandra A. Galitsyna, Grigory V. Sapunov, Ekaterina E. Khrameeva, Mikhail S. Gelfand

https://doi.org/10.7717/peerj-cs.307

November 27, 2020

Adaptive evolution at mRNA editing sites in soft-bodied cephalopods

Mikhail Moldovan, Zoe Chervontseva, Georgii Bazykin, Mikhail S. Gelfand

https://doi.org/10.7717/peerj.10456 PubMed 33312772

August 10, 2020

Cumulative contact frequency of a chromatin region is an intrinsic property linked to its function

Margarita D. Samborskaia, Aleksandra Galitsyna, Ilya Pletenev, Anna Trofimova, Andrey A. Mironov, Mikhail S. Gelfand, Ekaterina E. Khrameeva

https://doi.org/10.7717/peerj.9566 PubMed 32864204

March 27, 2018

Genome rearrangements and phylogeny reconstruction in Yersinia pestis

Olga O. Bochkareva, Natalia O. Dranenko, Elena S. Ocheredko, German M. Kanevsky, Yaroslav N. Lozinsky, Vera A. Khalaycheva, Irena I. Artamonova, Mikhail S. Gelfand

https://doi.org/10.7717/peerj.4545 PubMed 29607260

August 10, 2016

Changes in segmentation and setation along the anterior/posterior axis of the homonomous trunk limbs of a remipede (Crustacea, Arthropoda)

Viacheslav N. Ivanenko, Ekaterina A. Antonenko, Mikhail S. Gelfand, Jill Yager, Frank D. Ferrari

https://doi.org/10.7717/peerj.2305 PubMed 27602276

September 5, 2017 - Version: 1

Genome rearrangements and phylogeny reconstruction in Yersinia pestis

Olga O Bochkareva, Natalia O Dranenko, Elena S Ocheredko, German M Kanevsky, Yaroslav N Lozinsky, Vera A Khalaycheva, Irena I Artamonova, Mikhail S Gelfand

https://doi.org/10.7287/peerj.preprints.3223v1

Academic Editor on

October 28, 2021

The inconsistent microbiota of Budu, the Malaysian fermented anchovy sauce, revealed through 16S amplicon sequencing

Muhammad Zarul Hanifah Md Zoqratt, Han Ming Gan

https://doi.org/10.7717/peerj.12345 PubMed 34760368

October 4, 2021

cdev: a ground-truth based measure to evaluate RNA-seq normalization performance

Diem-Trang Tran, Matthew Might

https://doi.org/10.7717/peerj.12233 PubMed 34707933

October 1, 2021

Shifts from cis-to trans-splicing of five mitochondrial introns in Tolypanthus maclurei

Runxian Yu, Chenyu Sun, Ying Liu, Renchao Zhou

https://doi.org/10.7717/peerj.12260 PubMed 34703675

May 3, 2021

Lactobacillus reuteri TSR332 and Lactobacillus fermentum TSF331 stabilize serum uric acid levels and prevent hyperuricemia in rats

Yi-Wei Kuo, Shih-Hung Hsieh, Jui-Fen Chen, Cheng-Ruei Liu, Ching-Wei Chen, Yu-Fen Huang, Hsieh-Hsun Ho

https://doi.org/10.7717/peerj.11209 PubMed 33986988

January 5, 2021

Bacterial meta-analysis of chicken cecal microbiota

Luis Alberto Chica Cardenas, Viviana Clavijo, Martha Vives, Alejandro Reyes

https://doi.org/10.7717/peerj.10571 PubMed 33505795

November 26, 2020

Evolutionary dynamics and geographic dispersal of beta coronaviruses in African bats

Babatunde O. Motayo, Olukunle Oluwapamilerin Oluwasemowo, Paul A. Akinduti

https://doi.org/10.7717/peerj.10434 PubMed 33304657

November 17, 2020

Different analysis strategies of 16S rRNA gene data from rodent studies generate contrasting views of gut bacterial communities associated with diet, health and obesity

Jose F. Garcia-Mazcorro, Jorge R. Kawas, Cuauhtemoc Licona Cassani, Susanne Mertens-Talcott, Giuliana Noratto

https://doi.org/10.7717/peerj.10372 PubMed 33240672

October 6, 2020

The highly rearranged mitochondrial genomes of three economically important scale insects and the mitochondrial phylogeny of Coccoidea (Hemiptera: Sternorrhyncha)

Hong-Ling Liu, Qing-Dong Chen, Song Chen, De-Qiang Pu, Zhi-Teng Chen, Yue-Yue Liu, Xu Liu

https://doi.org/10.7717/peerj.9932 PubMed 33083111

September 25, 2020

Analysis of the infant gut microbiome reveals metabolic functional roles associated with healthy infants and infants with atopic dermatitis using metaproteomics

Amornthep Kingkaw, Massalin Nakphaichit, Narissara Suratannon, Sunee Nitisinprasert, Chantha Wongoutong, Pantipa Chatchatee, Sucheewin Krobthong, Sawanya Charoenlappanit, Sittiruk Roytrakul, Wanwipa Vongsangnak

https://doi.org/10.7717/peerj.9988 PubMed 33033661

October 2, 2019

Whole genome sequencing of a novel, dichloromethane-fermenting Peptococcaceae from an enrichment culture

Sophie I. Holland, Richard J. Edwards, Haluk Ertan, Yie Kuan Wong, Tonia L. Russell, Nandan P. Deshpande, Michael J. Manefield, Matthew Lee

https://doi.org/10.7717/peerj.7775 PubMed 31592187

July 8, 2019

Evolutionary couplings detect side-chain interactions

Adam J. Hockenberry, Claus O. Wilke

https://doi.org/10.7717/peerj.7280 PubMed 31328041

June 14, 2019

Genome-scale metabolic reconstruction and metabolic versatility of an obligate methanotroph Methylococcus capsulatus str. Bath

Ankit Gupta, Ahmad Ahmad, Dipesh Chothwe, Midhun K. Madhu, Shireesh Srivastava, Vineet K. Sharma

https://doi.org/10.7717/peerj.6685 PubMed 31316867

June 7, 2019

Metabolic traits specific for lipid-overproducing strain of Mucor circinelloides WJ11 identified by genome-scale modeling approach

Nattapat Isarankura Na Ayudhya, Kobkul Laoteng, Yuanda Song, Asawin Meechai, Wanwipa Vongsangnak

https://doi.org/10.7717/peerj.7015 PubMed 31316868

May 23, 2019

Gene expression in Tribolium castaneum life stages: Identifying a species-specific target for pest control applications

Lindsey C. Perkin, Brenda Oppert

https://doi.org/10.7717/peerj.6946 PubMed 31198628

April 16, 2019

The synergistic effect of concatenation in phylogenomics: the case in Pantoea

Marike Palmer, Stephanus N. Venter, Alistair R. McTaggart, Martin P.A. Coetzee, Stephanie Van Wyk, Juanita R. Avontuur, Chrizelle W. Beukes, Gerda Fourie, Quentin C. Santana, Magriet A. Van Der Nest, Jochen Blom, Emma T. Steenkamp

https://doi.org/10.7717/peerj.6698 PubMed 31024760

February 8, 2019

Improved genome of Agrobacterium radiobacter type strain provides new taxonomic insight into Agrobacterium genomospecies 4

Han Ming Gan, Melvin V.L. Lee, Michael A. Savka

https://doi.org/10.7717/peerj.6366 PubMed 30775173

September 20, 2018

Preliminary analysis of New Zealand scampi (Metanephrops challengeri) diet using metabarcoding

Aimee L. van der Reis, Olivier Laroche, Andrew G. Jeffs, Shane D. Lavery

https://doi.org/10.7717/peerj.5641 PubMed 30258728

January 16, 2018

Local genic base composition impacts protein production and cellular fitness

Erik M. Quandt, Charles C. Traverse, Howard Ochman

https://doi.org/10.7717/peerj.4286 PubMed 29362699

December 11, 2017

Arsenophonus and Sodalis replacements shape evolution of symbiosis in louse flies

Eva Šochová, Filip Husník, Eva Nováková, Ali Halajian, Václav Hypša

https://doi.org/10.7717/peerj.4099 PubMed 29250466

September 29, 2017

Effect of the environment on horizontal gene transfer between bacteria and archaea

Clara A. Fuchsman, Roy Eric Collins, Gabrielle Rocap, William J. Brazelton

https://doi.org/10.7717/peerj.3865 PubMed 28975058

August 25, 2017

Chloroplast genome expansion by intron multiplication in the basal psychrophilic euglenoid Eutreptiella pomquetensis

Nadja Dabbagh, Matthew S. Bennett, Richard E. Triemer, Angelika Preisfeld

https://doi.org/10.7717/peerj.3725 PubMed 28852596

August 21, 2017

Expression differences in Aphidius ervi (Hymenoptera: Braconidae) females reared on different aphid host species

Gabriel I. Ballesteros, Jürgen Gadau, Fabrice Legeai, Angelica Gonzalez-Gonzalez, Blas Lavandero, Jean-Christophe Simon, Christian C. Figueroa

https://doi.org/10.7717/peerj.3640 PubMed 28852588

August 21, 2017

A systematic review of differential rate of use of the word “evolve” across fields

Nina Singh, Matthew T. Sit, Marissa K. Schutte, Gabriel E. Chan, Jeyson E. Aldana, Diana Cervantes, Clyde H. Himmelstein, Pamela J. Yeh

https://doi.org/10.7717/peerj.3639 PubMed 28852587

June 6, 2017

In silico analysis reveals widespread presence of three gene families, MAPK, MAPKK and MAPKKK, of the MAPK cascade from crop plants of Solanaceae in comparison to the distantly-related syntenic species from Rubiaceae, coffee

Hira Iftikhar, Nayab Naveed, Nasar Virk, Muhammad Faraz Bhatti, Fengming Song

https://doi.org/10.7717/peerj.3255 PubMed 28603666

March 29, 2017

Assembly and comparative analysis of complete mitochondrial genome sequence of an economic plant Salix suchowensis

Ning Ye, Xuelin Wang, Juan Li, Changwei Bi, Yiqing Xu, Dongyang Wu, Qiaolin Ye

https://doi.org/10.7717/peerj.3148 PubMed 28367378

February 2, 2017

Geography shapes the phylogeny of frailejones (Espeletiinae Cuatrec., Asteraceae): a remarkable example of recent rapid radiation in sky islands

Mauricio Diazgranados, Janet C. Barber

https://doi.org/10.7717/peerj.2968 PubMed 28168124

October 13, 2015

Expression of temperature-sensitive ion channel TRPM8 in sperm cells correlates with vertebrate evolution

Rakesh Kumar Majhi, Somdatta Saha, Ashutosh Kumar, Arijit Ghosh, Nirlipta Swain, Luna Goswami, Pratyush Mohapatra, Apratim Maity, Vivek Kumar Sahoo, Abhishek Kumar, Chandan Goswami

https://doi.org/10.7717/peerj.1310 PubMed 26500819

September 1, 2015

Genome analysis of quorum sensing Cedecea neteri SSMD04 leads to identification of its novel signaling synthase (cneI), cognate receptor (cneR) and an orphan receptor

Kian-Hin Tan, Jia-Yi Tan, Wai-Fong Yin, Kok-Gan Chan

https://doi.org/10.7717/peerj.1216 PubMed 26355540

September 19, 2013

Publication trends in neuroimaging of minimally conscious states

Alex Garnett, Grace Lee, Judy Illes

https://doi.org/10.7717/peerj.155 PubMed 24109545

February 26, 2013

The co-evolution of multiply-informed dispersal: information transfer across landscapes from neighbors and immigrants

Alexis S. Chaine, Stéphane Legendre, Jean Clobert

https://doi.org/10.7717/peerj.44 PubMed 23638381