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October 2017

Table of Contents - PeerJ (Biology Articles)

Machine learning to analyze colon glands

Malignant colorectal cancer

October 3, 2017

Machine learning to analyze colon glands

Due to the large variability of biological tissue, machine learning techniques have shown superior performance over conventional image processing methods. Here, researchers present a deep neural network-based approach for segmentation and classification of glands in tissue of benign and malignant colorectal cancer.

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October 4, 2017

Accuracy of microbial community diversity estimated by closed- and open-reference OTUs

Robert C. Edgar

https://doi.org/10.7717/peerj.3889 PubMed 29018622

October 17, 2017

How to normalize metatranscriptomic count data for differential expression analysis

Heiner Klingenberg, Peter Meinicke

https://doi.org/10.7717/peerj.3859 PubMed 29062598

October 6, 2017

Benchmark datasets for phylogenomic pipeline validation, applications for foodborne pathogen surveillance

Ruth E. Timme, Hugh Rand, Martin Shumway, Eija K. Trees, Mustafa Simmons, Richa Agarwala, Steven Davis, Glenn E. Tillman, Stephanie Defibaugh-Chavez, Heather A. Carleton, William A. Klimke, Lee S. Katz

https://doi.org/10.7717/peerj.3893 PubMed 29372115

October 27, 2017

Skin and fur bacterial diversity and community structure on American southwestern bats: effects of habitat, geography and bat traits

Ara S. Winter, Jennifer J.M. Hathaway, Jason C. Kimble, Debbie C. Buecher, Ernest W. Valdez, Andrea Porras-Alfaro, Jesse M. Young, Kaitlyn J.H. Read, Diana E. Northup

https://doi.org/10.7717/peerj.3944 PubMed 29093998

October 6, 2017

voomDDA: discovery of diagnostic biomarkers and classification of RNA-seq data

Gokmen Zararsiz, Dincer Goksuluk, Bernd Klaus, Selcuk Korkmaz, Vahap Eldem, Erdem Karabulut, Ahmet Ozturk

https://doi.org/10.7717/peerj.3890 PubMed 29018623

October 5, 2017

Integration of lncRNA–miRNA–mRNA reveals novel insights into oviposition regulation in honey bees

Xiao Chen, Ce Ma, Chao Chen, Qian Lu, Wei Shi, Zhiguang Liu, Huihua Wang, Haikun Guo

https://doi.org/10.7717/peerj.3881 PubMed 29018616

October 27, 2017

Genome-wide identification and expression profile analysis of CCH gene family in Populus

Zhiru Xu, Liying Gao, Mengquan Tang, Chunpu Qu, Jiahuan Huang, Qi Wang, Chuanping Yang, Guanjun Liu, Chengjun Yang

https://doi.org/10.7717/peerj.3962 PubMed 29085758

October 30, 2017

Comparative genomic analysis of the PKS genes in five species and expression analysis in upland cotton

Xueqiang Su, Xu Sun, Xi Cheng, Yanan Wang, Muhammad Abdullah, Manli Li, Dahui Li, Junshan Gao, Yongping Cai, Yi Lin

https://doi.org/10.7717/peerj.3974 PubMed 29104824

October 10, 2017

Extending SEQenv: a taxa-centric approach to environmental annotations of 16S rDNA sequences

Ali Z. Ijaz, Thomas C. Jeffries, Umer Z. Ijaz, Kelly Hamonts, Brajesh K. Singh

https://doi.org/10.7717/peerj.3827 PubMed 29038749

October 5, 2017

The Plasmodium berghei RC strain is highly diverged and harbors putatively novel drug resistance variants

Warangkhana Songsungthong, Supasak Kulawonganunchai, Alisa Wilantho, Sissades Tongsima, Pongpisid Koonyosying, Chairat Uthaipibull, Sumalee Kamchonwongpaisan, Philip J. Shaw

https://doi.org/10.7717/peerj.3766 PubMed 29018598

October 12, 2017

Combining graph and flux-based structures to decipher phenotypic essential metabolites within metabolic networks

Julie Laniau, Clémence Frioux, Jacques Nicolas, Caroline Baroukh, Maria-Paz Cortes, Jeanne Got, Camille Trottier, Damien Eveillard, Anne Siegel

https://doi.org/10.7717/peerj.3860 PubMed 29038751