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September 2017

Table of Contents - PeerJ (Biology Articles)

Automated classification of tropical shrub species

Leaf samples

September 12, 2017

Automated classification of tropical shrub species

Researchers have developed a hybrid ‘leaf shape’ and machine learning approach to build an automated identification system for tropical shrubs.

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September 21, 2017

Benchmarking viromics: an in silico evaluation of metagenome-enabled estimates of viral community composition and diversity

47 citations

1,046 downloads

3,869 views

Simon Roux, Joanne B. Emerson, Emiley A. Eloe-Fadrosh, Matthew B. Sullivan

https://doi.org/10.7717/peerj.3817 PubMed 28948103

September 1, 2017

A practical guide to build de-novo assemblies for single tissues of non-model organisms: the example of a Neotropical frog

534 downloads

3,258 views

Santiago Montero-Mendieta, Manfred Grabherr, Henrik Lantz, Ignacio De la Riva, Jennifer A. Leonard, Matthew T. Webster, Carles Vilà

https://doi.org/10.7717/peerj.3702 PubMed 28879061

September 7, 2017

MetaCRAST: reference-guided extraction of CRISPR spacers from unassembled metagenomes

1 citation

348 downloads

2,796 views

Abraham G. Moller, Chun Liang

https://doi.org/10.7717/peerj.3788 PubMed 28894651

September 26, 2017

Ananke: temporal clustering reveals ecological dynamics of microbial communities

7 citations

470 downloads

2,777 views

Michael W. Hall, Robin R. Rohwer, Jonathan Perrie, Katherine D. McMahon, Robert G. Beiko

https://doi.org/10.7717/peerj.3812 PubMed 28966891

September 12, 2017

Automated classification of tropical shrub species: a hybrid of leaf shape and machine learning approach

4 citations

690 downloads

2,763 views

Miraemiliana Murat, Siow-Wee Chang, Arpah Abu, Hwa Jen Yap, Kien-Thai Yong

https://doi.org/10.7717/peerj.3792 PubMed 28924506

September 28, 2017

Predicting stimulation-dependent enhancer-promoter interactions from ChIP-Seq time course data

3 citations

483 downloads

2,436 views

Tomasz Dzida, Mudassar Iqbal, Iryna Charapitsa, George Reid, Henk Stunnenberg, Filomena Matarese, Korbinian Grote, Antti Honkela, Magnus Rattray

https://doi.org/10.7717/peerj.3742 PubMed 28970965

September 11, 2017

Genome-wide identification of the MADS-box transcription factor family in pear (Pyrus bretschneideri) reveals evolution and functional divergence

8 citations

539 downloads

2,337 views

Runze Wang, Meiling Ming, Jiaming Li, Dongqing Shi, Xin Qiao, Leiting Li, Shaoling Zhang, Jun Wu

https://doi.org/10.7717/peerj.3776 PubMed 28924499

September 15, 2017

Fish Ontology framework for taxonomy-based fish recognition

2 citations

752 downloads

2,178 views

Najib M. Ali, Haris A. Khan, Amy Y-Hui Then, Chong Ving Ching, Manas Gaur, Sarinder Kaur Dhillon

https://doi.org/10.7717/peerj.3811 PubMed 28929028

September 19, 2017

Genome-wide identification and characterization of aquaporin gene family in Beta vulgaris

15 citations

472 downloads

1,996 views

Weilong Kong, Shaozong Yang, Yulu Wang, Mohammed Bendahmane, Xiaopeng Fu

https://doi.org/10.7717/peerj.3747 PubMed 28948097

September 27, 2017

Estimating the age of Heliconius butterflies from calibrated photographs

1 citation

277 downloads

1,969 views

Denise Dalbosco Dell’Aglio, Derya Akkaynak, W. Owen McMillan, Chris D. Jiggins

https://doi.org/10.7717/peerj.3821 PubMed 28970967

September 18, 2017

The complete chloroplast genome of Cinnamomum camphora and its comparison with related Lauraceae species

8 citations

630 downloads

1,785 views

Caihui Chen, Yongjie Zheng, Sian Liu, Yongda Zhong, Yanfang Wu, Jiang Li, Li-An Xu, Meng Xu

https://doi.org/10.7717/peerj.3820 PubMed 28948105

September 15, 2017

Genomic analysis of P elements in natural populations of Drosophila melanogaster

6 citations

306 downloads

1,620 views

Casey M. Bergman, Shunhua Han, Michael G. Nelson, Vladyslav Bondarenko, Iryna Kozeretska

https://doi.org/10.7717/peerj.3824 PubMed 28929030

September 12, 2017

Challenging a bioinformatic tool’s ability to detect microbial contaminants using in silico whole genome sequencing data

5 citations

370 downloads

1,559 views

Nathan D. Olson, Justin M. Zook, Jayne B. Morrow, Nancy J. Lin

https://doi.org/10.7717/peerj.3729 PubMed 28924496

September 19, 2017

Analysis of drug binding pockets and repurposing opportunities for twelve essential enzymes of ESKAPE pathogens

1 citation

417 downloads

1,465 views

Sadia Naz, Tony Ngo, Umar Farooq, Ruben Abagyan

https://doi.org/10.7717/peerj.3765 PubMed 28948099

September 15, 2017

Association of rs1801157 single nucleotide polymorphism of CXCL12 gene in breast cancer in Pakistan and in-silico expression analysis of CXCL12–CXCR4 associated biological regulatory network

2 citations

290 downloads

1,425 views

Samra Khalid, Rumeza Hanif

https://doi.org/10.7717/peerj.3822 PubMed 28929029

September 8, 2017

Variance component testing for identifying differentially expressed genes in RNA-seq data

2 citations

278 downloads

1,406 views

Sheng Yang, Fang Shao, Weiwei Duan, Yang Zhao, Feng Chen

https://doi.org/10.7717/peerj.3797 PubMed 28929020

September 4, 2017

Prediction of endoplasmic reticulum resident proteins using fragmented amino acid composition and support vector machine

6 citations

317 downloads

1,194 views

Ravindra Kumar, Bandana Kumari, Manish Kumar

https://doi.org/10.7717/peerj.3561 PubMed 28890846

September 26, 2017

The Legionella pneumophila effector Lpg1137 is a homologue of mitochondrial SLC25 carrier proteins, not of known serine proteases

309 downloads

1,104 views

Marcin Gradowski, Krzysztof Pawłowski

https://doi.org/10.7717/peerj.3849 PubMed 28966893

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September 2017

Table of Contents - PeerJ (Biology Articles)

Leaf samples

Automated classification of tropical shrub species

Leaf samples

Automated classification of tropical shrub species

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