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July 2018

Table of Contents - PeerJ (Biology Articles)

Investigating parental care behaviour in same-sex pairing of zoo greater flamingo

Greater flamingos at Kutch

July 18, 2018

Investigating parental care behaviour in same-sex pairing of zoo greater flamingo

Same-sex pair bonding is an understudied area of research interest. In an early, small sample study, researchers have observed similar behavior in female-female parenting as with heterosexual pairs in the zoo greater flamingo (Phoenicopterus roseus). These early results could be illuminating with regard to the evolution of flamingo social behavior, same-sex pair bonds, and why pair bonds form in general. Image credit: Dhaval Vargiya, CC SA 4.0.

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July 31, 2018

Detection and benchmarking of somatic mutations in cancer genomes using RNA-seq data

6 citations

617 downloads

2,327 views

Alexandre Coudray, Anna M. Battenhouse, Philipp Bucher, Vishwanath R. Iyer

https://doi.org/10.7717/peerj.5362 PubMed 30083469

July 13, 2018

SECAPR—a bioinformatics pipeline for the rapid and user-friendly processing of targeted enriched Illumina sequences, from raw reads to alignments

5 citations

482 downloads

2,288 views

Tobias Andermann, Ángela Cano, Alexander Zizka, Christine Bacon, Alexandre Antonelli

https://doi.org/10.7717/peerj.5175 PubMed 30023140

July 2, 2018

Identification of hub genes and potential molecular mechanisms in gastric cancer by integrated bioinformatics analysis

10 citations

787 downloads

2,193 views

Ling Cao, Yan Chen, Miao Zhang, De-quan Xu, Yan Liu, Tonglin Liu, Shi-xin Liu, Ping Wang

https://doi.org/10.7717/peerj.5180 PubMed 30002985

July 12, 2018

Staphylococcus aureus viewed from the perspective of 40,000+ genomes

10 citations

589 downloads

1,981 views

Robert A. Petit, Timothy D. Read

https://doi.org/10.7717/peerj.5261 PubMed 30013858

July 25, 2018

Integrative machine learning analysis of multiple gene expression profiles in cervical cancer

4 citations

480 downloads

1,860 views

Mei Sze Tan, Siow-Wee Chang, Phaik Leng Cheah, Hwa Jen Yap

https://doi.org/10.7717/peerj.5285 PubMed 30065881

July 31, 2018

Rapid multi-locus sequence typing direct from uncorrected long reads using Krocus

5 citations

309 downloads

1,811 views

Andrew J. Page, Jacqueline A. Keane

https://doi.org/10.7717/peerj.5233 PubMed 30083440

July 31, 2018

Venomix: a simple bioinformatic pipeline for identifying and characterizing toxin gene candidates from transcriptomic data

6 citations

459 downloads

1,794 views

Jason Macrander, Jyothirmayi Panda, Daniel Janies, Marymegan Daly, Adam M. Reitzel

https://doi.org/10.7717/peerj.5361 PubMed 30083468

July 12, 2018

Minimizing confounders and increasing data quality in murine models for studies of the gut microbiome

11 citations

376 downloads

1,685 views

Jun Miyoshi, Vanessa Leone, Kentaro Nobutani, Mark W. Musch, Kristina Martinez-Guryn, Yunwei Wang, Sawako Miyoshi, Alexandria M. Bobe, A. Murat Eren, Eugene B. Chang

https://doi.org/10.7717/peerj.5166 PubMed 30013837

July 17, 2018

Whole-genome amplification in double-digest RADseq results in adequate libraries but fewer sequenced loci

4 citations

481 downloads

1,561 views

Bruno A. S. de Medeiros, Brian D. Farrell

https://doi.org/10.7717/peerj.5089 PubMed 30038852

July 30, 2018

BTW—Bioinformatics Through Windows: an easy-to-install package to analyze marker gene data

1 citation

264 downloads

1,543 views

Daniel Morais, Luiz F.W. Roesch, Marc Redmile-Gordon, Fausto G. Santos, Petr Baldrian, Fernando D. Andreote, Victor S. Pylro

https://doi.org/10.7717/peerj.5299 PubMed 30083449

July 10, 2018

Taxonomic annotation errors incorrectly assign the family Pseudoalteromonadaceae to the order Vibrionales in Greengenes: implications for microbial community assessments

2 citations

273 downloads

1,464 views

Keri Ann Lydon, Erin K. Lipp

https://doi.org/10.7717/peerj.5248 PubMed 30018864

July 25, 2018

Performance comparison of machine learning techniques in sleep scoring based on wavelet features and neighboring component analysis

4 citations

585 downloads

1,380 views

Behrouz Alizadeh Savareh, Azadeh Bashiri, Ali Behmanesh, Gholam Hossein Meftahi, Boshra Hatef

https://doi.org/10.7717/peerj.5247 PubMed 30065866

July 17, 2018

Integrated analysis of differentially expressed profiles and construction of a competing endogenous long non-coding RNA network in renal cell carcinoma

3 citations

454 downloads

1,342 views

Qianwei Xing, Yeqing Huang, You Wu, Limin Ma, Bo Cai

https://doi.org/10.7717/peerj.5124 PubMed 30038853

July 20, 2018

In silico-guided sequence modifications of K-ras epitopes improve immunological outcome against G12V and G13D mutant KRAS antigens

1 citation

382 downloads

1,319 views

Allan Wee Ren Ng, Pei Jun Tan, Winfrey Pui Yee Hoo, Dek Shen Liew, Michelle Yee Mun Teo, Pui Yan Siak, Sze Man Ng, Ee Wern Tan, Raha Abdul Rahim, Renee Lay Hong Lim, Adelene Ai Lian Song, Lionel Lian Aun In

https://doi.org/10.7717/peerj.5056 PubMed 30042874

July 4, 2018

Identification of SNPs potentially related to immune responses and growth performance in Litopenaeus vannamei by RNA-seq analyses

2 citations

326 downloads

1,318 views

Camilla A. Santos, Sónia C.S. Andrade, Patrícia D. Freitas

https://doi.org/10.7717/peerj.5154 PubMed 30013834

July 17, 2018

Meta-analysis of transcriptomic responses to biotic and abiotic stress in tomato

11 citations

485 downloads