PeerJ Editor, Author & Reviewer

5,117 Points

Contributions by role

Contributions by subject area

By Q&A topic

Abhishek Kumar

PeerJ Editor, Author & Reviewer

Summary

Researcher focusing on computational genomics with current interests in genetics, genomics and transcriptomics specially fungi, insects, and vertebrates. Current research interests as following
1. Research Area #1: Application of genomics to human diseases
2. Research Area #2: Genomics of drug-like molecules from fungi
3. Research Area #3: Evolutionary Genomics
4. Research Area #4: Biodiversity Genomics
5. Research Area #5: Viral Genomics

Computational Biology Computational Science Epidemiology Evolutionary Studies Genetics Genomics Medical Genetics Microbiology Mycology Translational Medicine Virology

Editing Journals

Past or current institution affiliations

Manipal Academy of Higher Education

Christian-Albrechts-University Kiel

Work details

Faculty Research Scientist

Institute of Bioinformatics (IOB), Bangalore. India

Computational Genome Biology

Websites

Google Scholar

PeerJ Contributions

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

June 16, 2015

Bayesian phylogeny analysis of vertebrate serpins illustrates evolutionary conservation of the intron and indels based six groups classification system from lampreys for ∼500 MY

Abhishek Kumar

https://doi.org/10.7717/peerj.1026 PubMed 26157611

May 26, 2015 - Version: 1

Bayesian phylogeny analysis of vertebrate serpins illustrates evolutionary conservation of the intron and indels based six groups classification system from lampreys for ~500 MY

Abhishek Kumar

https://doi.org/10.7287/peerj.preprints.1126v1

July 21, 2014 - Version: 1

Sperm specific expression of temperature-sensitive ion channel TRPM8 correlates with vertebrate evolution

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

https://doi.org/10.7287/peerj.preprints.440v1

Academic Editor on

September 8, 2020

Correlation between obesity and clinicopathological characteristics in patients with papillary thyroid cancer: a study of 1579 cases: a retrospective study

Huijuan Wang, Pingping Wang, Yu Wu, Xiukun Hou, Zechun Peng, Weiwei Yang, Lizhao Guan, Linfei Hu, Jingtai Zhi, Ming Gao, Xiangqian Zheng

https://doi.org/10.7717/peerj.9675 PubMed 33194342

July 17, 2020

Understanding genomic diversity, pan-genome, and evolution of SARS-CoV-2

Arohi Parlikar, Kishan Kalia, Shruti Sinha, Sucheta Patnaik, Neeraj Sharma, Sai Gayatri Vemuri, Gaurav Sharma

https://doi.org/10.7717/peerj.9576 PubMed 32742815

June 3, 2020

Air transportation, population density and temperature predict the spread of COVID-19 in Brazil

Pedro Pequeno, Bruna Mendel, Clarissa Rosa, Mariane Bosholn, Jorge Luiz Souza, Fabricio Baccaro, Reinaldo Barbosa, William Magnusson

https://doi.org/10.7717/peerj.9322 PubMed 32547889

May 26, 2020

Characterization of the bacterial microbiota composition and evolution at different intestinal tract in wild pigs (Sus scrofa ussuricus)

Guangli Yang, Chuanxin Shi, Shuhong Zhang, Yan Liu, Zhiqiang Li, Fengyi Gao, Yanyan Cui, Yongfeng Yan, Ming Li

https://doi.org/10.7717/peerj.9124 PubMed 32518722

February 24, 2020

Genome sequencing of Aspergillus glaucus ‘CCHA’ provides insights into salt-stress adaptation

Wenmin Qiu, Jingen Li, Yi Wei, Feiyu Fan, Jing Jiang, Mingying Liu, Xiaojiao Han, Chaoguang Tian, Shihong Zhang, Renying Zhuo

https://doi.org/10.7717/peerj.8609 PubMed 32140304

October 4, 2019

The clinical significance of collagen family gene expression in esophageal squamous cell carcinoma

Jieling Li, Xiao Wang, Kai Zheng, Ying Liu, Junjun Li, Shaoqi Wang, Kaisheng Liu, Xun Song, Nan Li, Shouxia Xie, Shaoxiang Wang

https://doi.org/10.7717/peerj.7705 PubMed 31598423

January 14, 2019

Worldwide co-occurrence analysis of 17 species of the genus Brachypodium using data mining

Simon Orozco-Arias, Ana María Núñez-Rincón, Reinel Tabares-Soto, Diana López-Álvarez

https://doi.org/10.7717/peerj.6193 PubMed 30656067

March 8, 2017

The complete chloroplast genome sequence of Morus cathayana and Morus multicaulis, and comparative analysis within genus Morus L

Wei Qing Kong, Jin Hong Yang

https://doi.org/10.7717/peerj.3037 PubMed 28286710

February 23, 2017

Retrospective observation of drug susceptibility of Candida strains in the years 1999, 2004, and 2015

Cecylia Łukaszuk, Elżbieta Krajewska-Kułak, Wojciech Kułak

https://doi.org/10.7717/peerj.3038 PubMed 28243540

January 26, 2017

Genomic insight into pathogenicity of dematiaceous fungus Corynespora cassiicola

Hong Keat Looi, Yue Fen Toh, Su Mei Yew, Shiang Ling Na, Yung-Chie Tan, Pei-Sin Chong, Jia-Shiun Khoo, Wai-Yan Yee, Kee Peng Ng, Chee Sian Kuan

https://doi.org/10.7717/peerj.2841 PubMed 28149676

September 20, 2016

A method for high precision sequencing of near full-length 16S rRNA genes on an Illumina MiSeq

Catherine M. Burke, Aaron E. Darling

https://doi.org/10.7717/peerj.2492 PubMed 27688981

July 6, 2016

Gene expression analysis of overwintering mountain pine beetle larvae suggests multiple systems involved in overwintering stress, cold hardiness, and preparation for spring development

Jeanne A. Robert, Tiffany Bonnett, Caitlin Pitt, Luke J. Spooner, Jordie Fraser, Macaire M.S. Yuen, Christopher I. Keeling, Jörg Bohlmann, Dezene P.W. Huber

https://doi.org/10.7717/peerj.2109 PubMed 27441109

June 28, 2016

Collecting reliable clades using the Greedy Strict Consensus Merger

Markus Fleischauer, Sebastian Böcker

https://doi.org/10.7717/peerj.2172 PubMed 27375971

June 27, 2016

Audio segmentation using Flattened Local Trimmed Range for ecological acoustic space analysis

Giovany Vega, Carlos J. Corrada-Bravo, T. Mitchell Aide

https://doi.org/10.7717/peerj-cs.70

May 24, 2016

De novo assembly and characterization of the Chinese three-keeled pond turtle (Mauremys reevesii) transcriptome: presence of longevity-related genes

Huazong Yin, Liuwang Nie, Feifei Zhao, Huaxing Zhou, Haifeng Li, Xianmei Dong, Huanhuan Zhang, Yuqin Wang, Qiong Shi, Jun Li

https://doi.org/10.7717/peerj.2062 PubMed 27257545

May 24, 2016

Sequence/structural analysis of xylem proteome emphasizes pathogenesis-related proteins, chitinases and β-1, 3-glucanases as key players in grapevine defense against Xylella fastidiosa

Sandeep Chakraborty, Rafael Nascimento, Paulo A. Zaini, Hossein Gouran, Basuthkar J. Rao, Luiz R. Goulart, Abhaya M. Dandekar

https://doi.org/10.7717/peerj.2007 PubMed 27257535

May 2, 2016

De novo genome assembly of Geosmithia morbida, the causal agent of thousand cankers disease

Taruna A. Schuelke, Anthony Westbrook, Kirk Broders, Keith Woeste, Matthew D. MacManes

https://doi.org/10.7717/peerj.1952 PubMed 27168971

January 18, 2016

Designing conservation strategies to preserve the genetic diversity of Astragalus edulis Bunge, an endangered species from western Mediterranean region

Julio Peñas, Sara Barrios, Javier Bobo-Pinilla, Juan Lorite, M. Montserrat Martínez-Ortega

https://doi.org/10.7717/peerj.1474 PubMed 26844014

September 10, 2015

The selenium content of SEPP1 versus selenium requirements in vertebrates

Sam Penglase, Kristin Hamre, Ståle Ellingsen

https://doi.org/10.7717/peerj.1244 PubMed 26734501

September 3, 2015

Transcriptional and posttranscriptional regulation of Bacillus sp. CDB3 arsenic-resistance operon ars1

Xuefei Yu, Wei Zheng, Somanath Bhat, J. Andrew Aquilina, Ren Zhang

https://doi.org/10.7717/peerj.1230 PubMed 26355338

August 6, 2015

Comprehensive analyses of genomes, transcriptomes and metabolites of neem tree

Nagesh A. Kuravadi, Vijay Yenagi, Kannan Rangiah, HB Mahesh, Anantharamanan Rajamani, Meghana D. Shirke, Heikham Russiachand, Ramya Malarini Loganathan, Chandana Shankara Lingu, Shilpa Siddappa, Aishwarya Ramamurthy, BN Sathyanarayana, Malali Gowda

https://doi.org/10.7717/peerj.1066 PubMed 26290780

July 9, 2015

The seasonal reproduction number of dengue fever: impacts of climate on transmission

Sittisede Polwiang

https://doi.org/10.7717/peerj.1069 PubMed 26213648

May 21, 2015

Trans-species polymorphism at antimicrobial innate immunity cathelicidin genes of Atlantic cod and related species

Katrín Halldórsdóttir, Einar Árnason

https://doi.org/10.7717/peerj.976 PubMed 26038731

May 14, 2015

Swabs to genomes: a comprehensive workflow

Madison I. Dunitz, Jenna M. Lang, Guillaume Jospin, Aaron E. Darling, Jonathan A. Eisen, David A. Coil

https://doi.org/10.7717/peerj.960 PubMed 26020012

December 16, 2014

Combining physical and virtual contexts through augmented reality: design and evaluation of a prototype using a drug box as a marker for antibiotic training

Sokratis Nifakos, Tanja Tomson, Nabil Zary

https://doi.org/10.7717/peerj.697 PubMed 25548733

December 9, 2014

The microbes we eat: abundance and taxonomy of microbes consumed in a day’s worth of meals for three diet types

Jenna M. Lang, Jonathan A. Eisen, Angela M. Zivkovic

https://doi.org/10.7717/peerj.659 PubMed 25538865

December 2, 2014

Susceptibility to experimental infection of the invertebrate locusts (Schistocerca gregaria) with the apicomplexan parasite Neospora caninum

Mamdowh M. Alkurashi, Sean T. May, Kenny Kong, Jaume Bacardit, David Haig, Hany M. Elsheikha

https://doi.org/10.7717/peerj.674 PubMed 25493211

November 20, 2014

Bacillus anthracis pXO1 plasmid encodes a putative membrane-bound bacteriocin

Agata Perlińska, Marcin Grynberg

https://doi.org/10.7717/peerj.679 PubMed 25426338

November 18, 2014

Genetic reprogramming of human amniotic cells with episomal vectors: neural rosettes as sentinels in candidate selection for validation assays

Patricia G. Wilson, Tiffany Payne

https://doi.org/10.7717/peerj.668 PubMed 25426336

November 13, 2014

Cocaine affects foraging behaviour and biogenic amine modulated behavioural reflexes in honey bees

Eirik Søvik, Naïla Even, Catherine W. Radford, Andrew B. Barron

https://doi.org/10.7717/peerj.662 PubMed 25405075

November 13, 2014

Error correction and diversity analysis of population mixtures determined by NGS

Graham R. Wood, Nigel J. Burroughs, David J. Evans, Eugene V. Ryabov

https://doi.org/10.7717/peerj.645 PubMed 25405074

November 4, 2014

Ancestry-informative markers for African Americans based on the Affymetrix Pan-African genotyping array

Xu Zhang, Wenbo Mu, Cong Liu, Wei Zhang

https://doi.org/10.7717/peerj.660 PubMed 25392759

November 4, 2014

Unipro UGENE NGS pipelines and components for variant calling, RNA-seq and ChIP-seq data analyses

Olga Golosova, Ross Henderson, Yuriy Vaskin, Andrei Gabrielian, German Grekhov, Vijayaraj Nagarajan, Andrew J. Oler, Mariam Quiñones, Darrell Hurt, Mikhail Fursov, Yentram Huyen

https://doi.org/10.7717/peerj.644 PubMed 25392756

October 30, 2014

Horizontal transfer generates genetic variation in an asexual pathogen

Xiaoqiu Huang

https://doi.org/10.7717/peerj.650 PubMed 25374789

September 30, 2014

Massively parallel read mapping on GPUs with the q-group index and PEANUT

Johannes Köster, Sven Rahmann

https://doi.org/10.7717/peerj.606 PubMed 25289191

August 14, 2014

Recent genome reduction of Wolbachia in Drosophila recens targets phage WO and narrows candidates for reproductive parasitism

Jason A. Metcalf, Minhee Jo, Sarah R. Bordenstein, John Jaenike, Seth R. Bordenstein