Whole-genome sequencing reveals transmission pattern and drug resistance of Mycobacterium tuberculosis intra- or inter-hosts by Feng Ding, Wanfei Liu, Chi Wu, Chi Wu, Wensi Zhang, Shuyan Chen, Shuyan Chen, Wenjie Lai, Wenjie Lai, Jiayao Qu, Jiayao Qu, Qiang Lin, Shuihua Lu, Jiuxin Qu, Jiuxin Qu

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Taming wild genomes: perspectives on mechanisms governing differential introgression in exotic rice germplasm and their applications in breeding by Avinash Shrestha, Christian J. Stephens, Rosalyn B. Angeles-Shim

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A genomic analysis of twinning rate and its relationship with other reproductive traits in Holstein-Friesian cattle by Brian W. Kirkpatrick, Donagh P. Berry

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Evaluating Genomic Selection in beef cattle: Insights from computer simulations using real SNP data by Lino César Ramírez Ayala, Jordi Leno-Colorado, Laura M. Zingaretti, Elies Ramón Gurrea, Yuliaxis Ramayo-Caldas, Miguel Pérez-Enciso

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Genome Analysis of Pass2 a Semi-Automated Database of Protein Alignments Organised as Structural Superfamilies by Anirban Bhaduri, V. Mallika, R. Sowdhamini

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Defective homologous recombination and genomic instability predict increased responsiveness to carbon ion radiotherapy in pancreatic cancer by Brock J. Sishc, Janapriya Saha, Elizabeth M. Alves, Lianghao Ding, Huiming Lu, Shih-Ya Wang, Katy L. Swancutt, James H. Nicholson, Angelica Facoetti, Arnold Pompos, Mario Ciocca, Todd A. Aguilera, Michael D. Story, Anthony J. Davis

“…Increased radiosensitivity was linked to impaired DNA double-strand break (DSB) repair, particularly in cell lines with deficiencies in the homologous recombination (HR) repair pathway and/or elevated genomic instability from replication stress. Furthermore, pretreatment with the HR inhibitor B02 significantly enhanced CIRT sensitivity in a radioresistant PDAC cell line when irradiated in the spread-out Bragg peak but not at the entry position of the beam. …”
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Sequencing whole genomes of the West Javanese population in Indonesia reveals novel variants and improves imputation accuracy by Edwin Ardiansyah, Anca-Lelia Riza, Sofiati Dian, Sofiati Dian, Ahmad Rizal Ganiem, Ahmad Rizal Ganiem, Bachti Alisjahbana, Bachti Alisjahbana, Todia P. Setiabudiawan, Arjan van Laarhoven, Reinout van Crevel, Vinod Kumar, Vinod Kumar

Subjects: “…whole genome sequencing…”
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Prioritization of causal genes from genome-wide association studies by Bayesian data integration across loci. by Zeinab Mousavi, Marios Arvanitis, ThuyVy Duong, Jennifer A Brody, Alexis Battle, Nona Sotoodehnia, Ali Shojaie, Dan E Arking, Joel S Bader

“…<h4>Motivation</h4>Genome-wide association studies (GWAS) have identified genetic variants, usually single-nucleotide polymorphisms (SNPs), associated with human traits, including disease and disease risk. …”
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Comparative Evaluation of Intron Prediction Methods and Detection of Plant Genome Annotation Using Intron Length Distributions by Long Yang, Hwan-Gue Cho

“…Genomics & Informatics…”
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First Detection and Genomic Characterization of Linezolid-Resistant <i>Enterococcus faecalis</i> Clinical Isolates in Bulgaria by Tanya V. Strateva, Preslava Hristova, Temenuga J. Stoeva, Hristina Hitkova, Slavil Peykov

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Genomic characteristics and molecular epidemiology of MRSA from medical centers in Mexico: Results from the Invifar network. by Gabriela Echaniz-Avilés, Luis Ángel Núñez-García, Eduardo Rodríguez-Noriega, Consuelo Velázquez-Acosta, Luis Esaú López-Jácome, Eduardo López-Gutiérrez, Talia Pérez-Vicelis, Cristina Torres-Báez, Ulises Garza-Ramos, Nadia Rodríguez-Medina, Juan Manuel Barajas-Magallón, Rosario Vázquez-Larios, Aldo Rafael Silva-Gamiño, Rafael Franco-Cendejas, Adolfo Gómez-Quiroz, Elvira Garza-González

“…<h4>Introduction</h4>The methicillin-resistant Staphylococcus aureus (MRSA) genome varies by geographical location. This study aims to determine the genomic characteristics of MRSA using whole-genome sequencing (WGS) data from medical centers in Mexico and to explore the associations between antimicrobial resistance genes and virulence factors.…”
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Whole genomic analysis uncovers high genetic diversity of rifampicin-resistant Mycobacterium tuberculosis strains in Botswana by Tuelo Mogashoa, Tuelo Mogashoa, Johannes Loubser, Ontlametse T. Choga, Ontlametse T. Choga, Justice Tresor Ngom, Wonderful T. Choga, Wonderful T. Choga, Mpaphi B. Mbulawa, Tuduetso Molefi, One Stephen, Topo Makhondo, Kedumetse Seru, Patience Motshosi, Boitumelo Zuze, Joseph Makhema, Rosemary M. Musonda, Dimpho Otukile, Chawangwa Modongo, Botshelo T. Kgwaadira, Keabetswe Fane, Simani Gaseitsiwe, Rob M. Warren, Sikhulile Moyo, Sikhulile Moyo, Sikhulile Moyo, Sikhulile Moyo, Anzaan Dippenaar, Elizabeth M. Streicher

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Identifying unstable CNG repeat loci in the human genome: a heuristic approach and implications for neurological disorders by Varun Suroliya, Bharathram Uppili, Manish Kumar, Vineet Jha, Achal K. Srivastava, Mohammed Faruq

“…Human Genome Variation…”
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Complete chloroplast genome of Sagina maxima A. Gray (Caryophyllaceae) from Ulleung-do Island, Korea by Asif S. Tamboli, Suhas K. Kadam, Jin-Suk Youn, JiYoung Yang, Young Seok Sim, Jae Hong Pak, Yeon-Sik Choo

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Morphological Characteristics, Mitochondrial Genome, and Evolutionary Insights Into a New Sea Squirt From the Beibu Gulf by Yichuan Zhang, Yuting Qin, Yueying Wu, Liping Liu, Wenguang Zhang, Ling Ding, Xiangpei Ya, Zhiting Wen, Kuaili Feng, Hong Wang, Yujun Wang

Subjects: “…mitochondrial genome…”
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Clinical isolates of Candida auris with enhanced adherence and biofilm formation due to genomic amplification of ALS4. by Jian Bing, Zhangyue Guan, Tianhong Zheng, Zhijie Zhang, Shuru Fan, Craig L Ennis, Clarissa J Nobile, Guanghua Huang

“…Global transcriptional profiling and quantitative real-time PCR assays indicated that genomic amplification of ALS4 results in a dramatic increase in overall levels of transcription. …”
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Comprehensive genomic surveillance reveals transmission profiles of extensively drug-resistant tuberculosis cases in Pará, Brazil by Davi Josué Marcon, Davi Josué Marcon, Abhinav Sharma, Alex Brito Souza, Alex Brito Souza, Rafaella Bonfim Barros, Valnete das Graças Dantas Andrade, Ricardo José de Paula Souza Guimarães, Luana Nepomuceno Gondim Lima, Luana Nepomuceno Gondim Lima, Lúcia Helena Martins Tavares Monteiro, Ana Judith Pires Garcia Quaresma, Ana Judith Pires Garcia Quaresma, Layana Rufino Ribeiro, Layana Rufino Ribeiro, Philip Noel Suffys, Robin Mark Warren, Carlos Augusto Abreu Alberio, Karla Valéria Batista Lima, Karla Valéria Batista Lima, Emilyn Costa Conceição

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Prevalent integration of genomic repetitive and regulatory elements and donor sequences at CRISPR-Cas9-induced breaks by Chongwei Bi, Baolei Yuan, Yingzi Zhang, Mengge Wang, Yeteng Tian, Mo Li

“…RE frequencies and 3D genome organization analysis suggest LgIns originate from randomly acquired genomic fragments by DNA repair mechanisms. …”
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Complete Whole Genome Sequence of Vibrio parahaemolyticus RP0132 Strain Isolated from Shrimp in Malaysia by Ke-Yan Loo, Loh Teng-Hern Tan, Jodi Woan-Fei Law, Kah-Ooi Chua, Priyia Pusparajah, Learn-Han Lee, Vengadesh Letchumanan

“…Therefore, we report the genome sequence of V. parahaemolyticus RP0132 isolated from shrimp to gain insight into its antimicrobial resistance traits and potential resistance mechanisms. …”
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The Calicophoron daubneyi genome provides new insight into mechanisms of feeding, eggshell synthesis and parasite-microbe interactions by Shauna M. Clancy, Mark Whitehead, Nicola A. M. Oliver, Kathryn M. Huson, Jake Kyle, Daniel Demartini, Allister Irvine, Fernanda Godoy Santos, Paul-Emile Kajugu, Robert E. B. Hanna, Sharon A. Huws, Russell M. Morphew, J. Herbert Waite, Sam Haldenby, Mark W. Robinson

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