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November 2020

Table of Contents - PeerJ (Biology Articles)

November 6, 2020

Deep learning prediction of likelihood of ICU admission and mortality in COVID-19 patients using clinical variables

Xiaoran Li, Peilin Ge, Jocelyn Zhu, Haifang Li, James Graham, Adam Singer, Paul S. Richman, Tim Q. Duong

https://doi.org/10.7717/peerj.10337 PubMed 33194455

November 26, 2020

The m6A reader protein YTHDC2 is a potential biomarker and associated with immune infiltration in head and neck squamous cell carcinoma

Yang Li, Ji-Na Zheng, En-Hao Wang, Chan-Juan Gong, Keng-Fu Lan, XiaoJun Ding

https://doi.org/10.7717/peerj.10385 PubMed 33304653

November 5, 2020

Deep-learning convolutional neural networks with transfer learning accurately classify COVID-19 lung infection on portable chest radiographs

Shreeja Kikkisetti, Jocelyn Zhu, Beiyi Shen, Haifang Li, Tim Q. Duong

https://doi.org/10.7717/peerj.10309 PubMed 33194447

November 23, 2020

Identifying MMP14 and COL12A1 as a potential combination of prognostic biomarkers in pancreatic ductal adenocarcinoma using integrated bioinformatics analysis

Jingyi Ding, Yanxi Liu, Yu Lai

https://doi.org/10.7717/peerj.10419 PubMed 33282565

November 18, 2020

Stem cell imaging through convolutional neural networks: current issues and future directions in artificial intelligence technology

Ramanaesh Rao Ramakrishna, Zariyantey Abd Hamid, Wan Mimi Diyana Wan Zaki, Aqilah Baseri Huddin, Ramya Mathialagan

https://doi.org/10.7717/peerj.10346 PubMed 33240655

November 13, 2020

Optimization of high molecular weight DNA extraction methods in shrimp for a long-read sequencing platform

Pacharaporn Angthong, Tanaporn Uengwetwanit, Wirulda Pootakham, Kanchana Sittikankaew, Chutima Sonthirod, Duangjai Sangsrakru, Thippawan Yoocha, Intawat Nookaew, Thidathip Wongsurawat, Piroon Jenjaroenpun, Wanilada Rungrassamee, Nitsara Karoonuthaisiri

https://doi.org/10.7717/peerj.10340 PubMed 33240651

November 5, 2020

An updated evolutionary study of the Notch family reveals a new ancient origin and novel invariable motifs as potential pharmacological targets

Dimitrios Vlachakis, Louis Papageorgiou, Ariadne Papadaki, Maria Georga, Sofia Kossida, Elias Eliopoulos

https://doi.org/10.7717/peerj.10334 PubMed 33194454

November 27, 2020

Adaptive evolution at mRNA editing sites in soft-bodied cephalopods

Mikhail Moldovan, Zoe Chervontseva, Georgii Bazykin, Mikhail S. Gelfand

https://doi.org/10.7717/peerj.10456 PubMed 33312772

November 4, 2020

Silicon flow from root to shoot in pepper: a comprehensive in silico analysis reveals a potential linkage between gene expression and hormone signaling that stimulates plant growth and metabolism

Fernando Carlos Gómez-Merino, Libia Iris Trejo-Téllez, Atonaltzin García-Jiménez, Hugo Fernando Escobar-Sepúlveda, Sara Monzerrat Ramírez-Olvera

https://doi.org/10.7717/peerj.10053 PubMed 33194376

November 27, 2020

Identification and prognostic value of DLGAP5 in endometrial cancer

Ruoyi Zheng, Zhengzheng Shi, Wenzhi Li, Jianqin Yu, Yuli Wang, Qing Zhou

https://doi.org/10.7717/peerj.10433 PubMed 33312770

November 24, 2020

miR-224, miR-147b and miR-31 associated with lymph node metastasis and prognosis for lung adenocarcinoma by regulating PRPF4B, WDR82 or NR3C2

Yan Wang, Shengtao Shang, Kun Yu, Hongbin Sun, Wenduan Ma, Wei Zhao

https://doi.org/10.7717/peerj.9704 PubMed 33282547

November 24, 2020

Classification of ovarian cancer associated with BRCA1 mutations, immune checkpoints, and tumor microenvironment based on immunogenomic profiling

Yousheng Wei, Tingyu Ou, Yan Lu, Guangteng Wu, Ying Long, Xinbin Pan, Desheng Yao

https://doi.org/10.7717/peerj.10414 PubMed 33282564

November 5, 2020

BiSCoT: improving large eukaryotic genome assemblies with optical maps

Benjamin Istace, Caroline Belser, Jean-Marc Aury

https://doi.org/10.7717/peerj.10150 PubMed 33194395

November 9, 2020

MutRank: an R shiny web-application for exploratory targeted mutual rank-based coexpression analyses integrated with user-provided supporting information

Elly Poretsky, Alisa Huffaker

https://doi.org/10.7717/peerj.10264 PubMed 33240618

November 3, 2020

Increased expression of POLR3G predicts poor prognosis in transitional cell carcinoma

Xianhui Liu, Weiyu Zhang, Huanrui Wang, Chin-Hui Lai, Kexin Xu, Hao Hu

https://doi.org/10.7717/peerj.10281 PubMed 33194434

November 17, 2020

Different analysis strategies of 16S rRNA gene data from rodent studies generate contrasting views of gut bacterial communities associated with diet, health and obesity

Jose F. Garcia-Mazcorro, Jorge R. Kawas, Cuauhtemoc Licona Cassani, Susanne Mertens-Talcott, Giuliana Noratto

https://doi.org/10.7717/peerj.10372 PubMed 33240672

November 24, 2020

DPM1 expression as a potential prognostic tumor marker in hepatocellular carcinoma

Ming Li, Shengli Xia, Ping Shi

https://doi.org/10.7717/peerj.10307 PubMed 33282554

November 20, 2020

Loss of HOXB3 correlates with the development of hormone receptor negative breast cancer

Lizhe Zhu, Shibo Yu, Siyuan Jiang, Guanqun Ge, Yu Yan, Yuhui Zhou, Ligang Niu, Jianjun He, Yu Ren, Bin Wang

https://doi.org/10.7717/peerj.10421 PubMed 33240685

November 13, 2020

Identification of L-asparaginases from Streptomyces strains with competitive activity and immunogenic profiles: a bioinformatic approach

Iván González-Torres, Ernesto Perez-Rueda, Zahaed Evangelista-Martínez, Andrés Zárate-Romero, Angélica Moreno-Enríquez, Alejandro Huerta-Saquero

https://doi.org/10.7717/peerj.10276 PubMed 33240625

November 3, 2020

Differentially expressed serum proteins in children with or without asthma as determined using isobaric tags for relative and absolute quantitation proteomics

Ming Li, Mingzhu Wu, Ying Qin, Huaqing Liu, Chengcheng Tu, Bing Shen, Xiaohong Xu, Hongbo Chen

https://doi.org/10.7717/peerj.9971 PubMed 33194371

November 17, 2020

Analysis of genes and underlying mechanisms involved in foam cells formation and atherosclerosis development

Kai Zhang, Xianyu Qin, Xianwu Zhou, Jianrong Zhou, Pengju Wen, Shaoxian Chen, Min Wu, Yueheng Wu, Jian Zhuang

https://doi.org/10.7717/peerj.10336 PubMed 33240650

November 20, 2020

Identification of hub genes associated with the pathogenesis of diffuse large B-cell lymphoma subtype one characterized by host response via integrated bioinformatic analyses

Lingna Zhou, Liya Ding, Yuqi Gong, Jing Zhao, Gong Xin, Ren Zhou, Wei Zhang

https://doi.org/10.7717/peerj.10269 PubMed 33240622

November 26, 2020

A signature of tumor DNA repair genes associated with the prognosis of surgically-resected lung adenocarcinoma

Xiongtao Yang, Guohui Wang, Runchuan Gu, Xiaohong Xu, Guangying Zhu

https://doi.org/10.7717/peerj.10418 PubMed 33304656

November 19, 2020

Comprehensive analysis and identification of key genes and signaling pathways in the occurrence and metastasis of cutaneous melanoma

Hanying Dai, Lihuang Guo, Mingyue Lin, Zhenbo Cheng, Jiancheng Li, Jinxia Tang, Xisha Huan, Yue Huang, Keqian Xu

https://doi.org/10.7717/peerj.10265 PubMed 33240619

November 2, 2020

Genome-wide discovery and characterization of long noncoding RNAs in African oil palm (Elaeis guineensis Jacq.)

Wei Xia, Yajing Dou, Rui Liu, Shufang Gong, Dongyi Huang, Haikuo Fan, Yong Xiao

https://doi.org/10.7717/peerj.9585 PubMed 33194332

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