A scalable tool for analyzing genomic variants of humans using knowledge graphs and graph machine learning by Shivika Prasanna, Ajay Kumar, Deepthi Rao, Eduardo J. Simoes, Praveen Rao

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Chromosome-level genome assembly of black carp Mylopharyngodon piceus using Nanopore and Hi-C technologies by Yuxuan Zhang, Yanwen Shao, Xudong Liu, Liang Zhong, Zhaoyan Zhong, Weiwei Zeng, Jiping Zhang, Wenlong Cai, Runsheng Li

“…The genome was anchored onto 24 chromosomes by Hi-C technology. …”
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Protocol to Identify Unknown Flanking DNA Using Partially Overlapping Primer-based PCR for Genome Walking by Mengya Jia, Dongqin Ding, Xiaohua Liu, Haixing Li

“…Genome walking is a popular molecular technique for accessing unknown flanking DNAs, which has been widely used in biology-related fields. …”
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Genome-wide association study of myofiber type composition traits in a yellow-feather broiler population by Chengyu Fan, Yanju Shan, Ming Zhang, Yunjie Tu, Gaige Ji, Xiaojun Ju, Jingting Shu, Yifan Liu

Subjects: “…Genome-wide association study…”
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Genome-Wide Identification of Genes Probably Relevant to the Uniqueness of Tea Plant (Camellia sinensis) and Its Cultivars by Yan Wei, Wang Jing, Zhou Youxiang, Zhao Mingming, Gong Yan, Ding Hua, Peng Lijun, Hu Dingjin

“…International Journal of Genomics…”
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Copy Number Variation of UGT 2B Genes in Indian Families Using Whole Genome Scans by Avinash M. Veerappa, Prakash Padakannaya, Nallur B. Ramachandra

“…We investigated the presence of CNVs in UGT2B genes in 31 members from eight Indian families using Affymetrix Genome-Wide Human SNP Array 6.0 chip. Results. Our data revealed >50% of the study members carried CNVs in UGT2B genes, of which 76% showed deletion polymorphism. …”
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Genomic and Drug Resistance Profile of Bovine Multidrug-Resistant <i>Escherichia coli</i> Isolated in Kazakhstan by Pavel G. Alexyuk, Andrey P. Bogoyavlenskiy, Yergali S. Moldakhanov, Kuralay S. Akanova, Adolat N. Manakbayeva, Timur Kerimov, Vladimir E. Berezin, Madina S. Alexyuk

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Blood Genomics Identifies Three Subtypes of Systemic Lupus Erythematosus: “IFN-High,” “NE-High,” and “Mixed” by Mintian Cui, Taotao Li, Xinwei Yan, Chao Wang, Qi Shen, Hongbiao Ren, Liangshuang Li, Ruijie Zhang

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Insights into structure, codon usage, repeats, and RNA editing of the complete mitochondrial genome of Perilla frutescens (Lamiaceae) by Ru Wang, Yongjian Luo, Zheng Lan, Daoshou Qiu

“…While the nuclear and chloroplast genomes of P. frutescens have already been documented, the complete mitochondrial genome sequence remains unreported. …”
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Three-dimensional linkage analysis with digital PCR for genome integrity and identity of recombinant adeno-associated virus by Tam Duong, Michele Firmo, Chien-Ting Li, Bingnan Gu, Peng Wang

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Novel Genomic Aberrations in Testicular Germ Cell Tumors by Array-CGH, and Associated Gene Expression Changes by Rolf I. Skotheim, Reija Autio, Guro E. Lind, Sigrid M. Kraggerud, Peter W. Andrews, Outi Monni, Olli Kallioniemi, Ragnhild A. Lothe

“…Conclusion: This first genome-wide integrated array-CGH and gene expression profiling of TGCT provides novel insights into the genome biology underlying testicular tumorigenesis.…”
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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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