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November 2021

Table of Contents - PeerJ (Biology Articles)

November 10, 2021

Multi-omic characterization of the thermal stress phenome in the stony coral Montipora capitata

Amanda Williams, Jananan S. Pathmanathan, Timothy G. Stephens, Xiaoyang Su, Eric N. Chiles, Dennis Conetta, Hollie M. Putnam, Debashish Bhattacharya

https://doi.org/10.7717/peerj.12335 PubMed 34824906

November 2, 2021

Parallel power posterior analyses for fast computation of marginal likelihoods in phylogenetics

Sebastian Höhna, Michael J. Landis, John P. Huelsenbeck

https://doi.org/10.7717/peerj.12438 PubMed 34760401

November 19, 2021

Genome-wide identification and expression analysis of ethylene responsive factor family transcription factors in Juglans regia

Tianyu Wang, Xiangqian Gao, Sisi Chen, Dapei Li, Shuwen Chen, Muhong Xie, Zhenggang Xu, Guiyan Yang

https://doi.org/10.7717/peerj.12429 PubMed 34820183

November 19, 2021

Analysis of core genes for colorectal cancer prognosis based on immune and stromal scores

Yi Zhu, Yuan Zhou, HongGang Jiang, ZhiHeng Chen, BoHao Lu

https://doi.org/10.7717/peerj.12452 PubMed 34820188

November 30, 2021

Genome-wide analysis of the CalS gene family in cotton reveals their potential roles in fiber development and responses to stress

Jiajia Feng, Yi Chen, Xianghui Xiao, Yunfang Qu, Pengtao Li, Quanwei Lu, Jinling Huang

https://doi.org/10.7717/peerj.12557 PubMed 34909280

November 30, 2021

Aeromonas hydrophila infection induces Toll-like receptor 2 (tlr2) and associated downstream signaling in Indian catfish, Clarias magur (Hamilton, 1822)

Chinmayee Muduli, Anutosh Paria, Ranjana Srivastava, Gaurav Rathore, Kuldeep K. Lal

https://doi.org/10.7717/peerj.12411 PubMed 34909268

November 4, 2021

Global gap-analysis of amphipod barcode library

Anna Maria Jażdżewska, Anne Helene S. Tandberg, Tammy Horton, Saskia Brix

https://doi.org/10.7717/peerj.12352 PubMed 34760373

November 26, 2021

Helicobacter pylori virulence factors: relationship between genetic variability and phylogeographic origin

Aura M. Rodriguez, Daniel A. Urrea, Carlos F. Prada

https://doi.org/10.7717/peerj.12272 PubMed 34900406

November 5, 2021

Evolutionary history of the vertebrate Piwi gene family

Javier Gutierrez, Roy Platt, Juan C. Opazo, David A. Ray, Federico Hoffmann, Michael Vandewege

https://doi.org/10.7717/peerj.12451 PubMed 34760405

November 23, 2021

Establishment and validation of an individualized macrophage-related gene signature to predict overall survival in patients with triple negative breast cancer

Peng Su, Ziqi Peng, Boyang Xu, Bowen Yang, Feng Jin

https://doi.org/10.7717/peerj.12383 PubMed 34900411

November 16, 2021

Interleukin 20 receptor A expression in colorectal cancer and its clinical significance

Rui Liu, Honghao Yin, Xin Sun, Songyi Liu, Ang Wang, Ying Wu, Yuan Yuan, Yuehua Gong, Chengzhong Xing

https://doi.org/10.7717/peerj.12467 PubMed 34820194

November 25, 2021

Gender specific eRNA TBX5-AS1 as the immunological biomarker for male patients with lung squamous cell carcinoma in pan-cancer screening

Tao Yan, Kai Wang, Qidi Zhao, Junjie Zhuang, Hongchang Shen, Guoyuan Ma, Lei Cong, Jiajun Du

https://doi.org/10.7717/peerj.12536 PubMed 34900441

November 12, 2021

Conserved molecular signatures in the spike protein provide evidence indicating the origin of SARS-CoV-2 and a Pangolin-CoV (MP789) by recombination(s) between specific lineages of Sarbecoviruses

Bijendra Khadka, Radhey S. Gupta

https://doi.org/10.7717/peerj.12434 PubMed 35028194

November 8, 2021

Identification of keygenes, miRNAs and miRNA-mRNA regulatory pathways for chemotherapy resistance in ovarian cancer

Wenwen Wang, Wenwen Zhang, Yuanjing Hu

https://doi.org/10.7717/peerj.12353 PubMed 34820170

November 24, 2021

Proteomic profiling of the endogenous peptides of MRSA and MSSA

Haixia Tu, Fei Xu, Yiwei Cheng, Qianglong Pan, Xiao Cai, Shouxing Wang, Shuting Ge, Min Cao, Dongming Su, Yan Li

https://doi.org/10.7717/peerj.12508 PubMed 34900427

November 30, 2021

EpiCurator: an immunoinformatic workflow to predict and prioritize SARS-CoV-2 epitopes

Cristina S. Ferreira, Yasmmin C. Martins, Rangel Celso Souza, Ana Tereza R. Vasconcelos

https://doi.org/10.7717/peerj.12548 PubMed 34909278

November 26, 2021

Prediction of early recurrence and response to adjuvant Sorafenib for hepatocellular carcinoma after resection

Liming Zheng, Xi Gu, Guojun Zheng, Xin Li, Meifang He, Longgen Liu, Xike Zhou

https://doi.org/10.7717/peerj.12554 PubMed 34900444

November 10, 2021

Transcriptome profiling of lncRNA and co-expression network in the vaginal epithelial tissue of women with lubrication disorders

Jingjing Zhang, Jing Zhang, Shengnan Cong, Jingyi Feng, Lianjun Pan, Yuan Zhu, Aixia Zhang, Jiehua Ma

https://doi.org/10.7717/peerj.12485 PubMed 34824921

November 2, 2021

Integrated bioinformatics analysis reveals dynamic candidate genes and signaling pathways involved in the progression and prognosis of diffuse large B-cell lymphoma

Alice Charwudzi, Ye Meng, Linhui Hu, Chen Ding, Lianfang Pu, Qian Li, Mengling Xu, Zhimin Zhai, Shudao Xiong

https://doi.org/10.7717/peerj.12394 PubMed 34760386

November 15, 2021

Virus-derived sequences from the transcriptomes of two snail vectors of schistosomiasis, Biomphalaria pfeifferi and Bulinus globosus from Kenya

Sijun Liu, Si-Ming Zhang, Sarah K. Buddenborg, Eric S. Loker, Bryony C. Bonning

https://doi.org/10.7717/peerj.12290 PubMed 34820163

November 9, 2021

Development of a bioinformatics platform for analysis of quantitative transcriptomics and proteomics data: the OMnalysis

Punit Tyagi, Mangesh Bhide

https://doi.org/10.7717/peerj.12415 PubMed 34820180

November 3, 2021

Genomic diversity of SARS-CoV-2 in Malaysia

Noorliza Mohamad Noordin, Joon Liang Tan, Chee Kheong Chong, Yu Kie Chem, Norazimah Tajudin, Rehan Shuhada Abu Bakar, Selvanesan Sengol, Hannah Yik Phing Phoon, Nurul Aina Murni Che Azid, W Nur Afiza W Mohd Arifin, Zirwatul Adilah Aziz, Hani Hussin, Nurul Syahida Ibrahim, Aziyati Omar, Ushananthiny Ravi, Kamal Hisham Kamarul Zaman, Mohd Asri Yamin, Yun Fong Ngeow

https://doi.org/10.7717/peerj.12449 PubMed 34760404

November 25, 2021

Evaluating whole-genome sequencing quality metrics for enteric pathogen outbreaks

Darlene D. Wagner, Heather A. Carleton, Eija Trees, Lee S. Katz

https://doi.org/10.7717/peerj.12446 PubMed 34900416

November 26, 2021

treedata.table: a wrapper for data.table that enables fast manipulation of large phylogenetic trees matched to data

Cristian Román Palacios, April Wright, Josef Uyeda

https://doi.org/10.7717/peerj.12450 PubMed 34900417

November 30, 2021

FEM: mining biological meaning from cell level in single-cell RNA sequencing data

Yunqing Liu, Na Lu, Changwei Bi, Tingyu Han, Guo Zhuojun, Yunchi Zhu, Yixin Li, Chunpeng He, Zuhong Lu

https://doi.org/10.7717/peerj.12570 PubMed 34909283

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