Performance and limitations of linkage-disequilibrium-based methods for inferring the genomic landscape of recombination and detecting hotspots: a simulation study by Raynaud, Marie, Gagnaire, Pierre-Alexandre, Galtier, Nicolas

“…Knowledge of recombination rate variation along the genome provides important insights into genome and phenotypic evolution. …”
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High quality genome assembly and annotation (v1) of the eukaryotic terrestrial microalga Coccomyxa viridis SAG 216-4 by Kraege, Anton, Chavarro-Carrero, Edgar A., Guiglielmoni, Nadège, Schnell, Eva, Kirangwa, Joseph, Heilmann-Heimbach, Stefanie, Becker, Kerstin, Köhrer, Karl, Schiffer, Philipp, Thomma, Bart P. H. J., Rovenich, Hanna

“…We generated a high-quality genome assembly for the lichen photobiont Coccomyxa viridis SAG 216-4 (formerly C. mucigena). …”
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Genomic insights into pigeon breeding: GWAS for economic traits and the development of a high-throughput liquid phase array chip by Bo Zhang, Jianyuan Ma, Li Shen, Yipu Li, Shuxian Xie, Haoxuan Li, Jing Li, Xianyao Li, Zheng Wang

“…This study integrates phenotypic data from Tarim pigeons and White King pigeons with genomic information, using genome-wide association analysis (GWAS) to identify genetic markers associated with key economic traits, thereby accelerating the breeding process. …”
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ParSite is a multicolor DNA labeling system that allows for simultaneous imaging of triple genomic loci in living cells. by Xiaohui He, Yadong Sun, Hanhui Ma

“…However, robust methods for tracking genome organization or genomic interactions over time in living cells are lacking. …”
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Recombinant AAV batch profiling by nanopore sequencing elucidates product-related DNA impurities and vector genome length distribution by Florian Dunker-Seidler, Kathrin Breunig, Magdalena Haubner, Florian Sonntag, Markus Hörer, Rebecca C. Feiner

“…During production, recombinant adeno-associated virus (rAAV) capsids are equipped with heterogeneous genetic payloads including undesired DNA impurities as well as truncated vector genomes. Comprehensive analysis of encapsidated DNA by long-read next-generation sequencing is destined to guide platform optimization and provide crucial insights into safety of gene therapies. …”
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Detecting gene copy number alterations by Oncomine Comprehensive genomic profiling in a comparative study on FFPE tumor samples by Fabio Bozzi, Elena Conca, Marco Silvestri, Gianpaolo Dagrada, Alice Ardore, Donata Penso, Daniele Lorenzini, Chiara Costanza Volpi, Desirè Viola Trupia, Adele Busico, Iolanda Capone, Federica Perrone, Elena Tamborini, Andrea Vingiani, Luca Agnelli, Giancarlo Pruneri

“…The introduction of other procedures, such as Next-Generation Sequencing has dramatically improved CNAs discovery at genome-wide level. The detection of CNAs by NGS in FFPE material is, nonetheless, a complex issue, which still requires validation studies. …”
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Genome-wide association study reveals major loci for resistance to septoria tritici blotch in a Tunisian durum wheat collection. by Maroua Ouaja, Bikash Ghimire, Bochra Amina Bahri, Medini Maher, Sahbi Ferjaoui, Sripada Udupa, Sonia Hamza

“…Using 7638 SNP markers, fifty-one marker-trait associations (MTAs) for STB resistance were identified by genome-wide association study (GWAS) at Bonferroni correction threshold of -log10(P) > 5.184 with phenotypic variance explained (PVE) reaching up to 58%. …”
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Complete genome sequencing and probiotic characterization of promising lactic acid bacterial strains isolated from dairy products in Egyptian markets by Mostafa F. El-Hosseny, Mohamed G Seadawy, Mohammed O Abdel-Monem, Mervat G Hassan

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A remarkable and durable response to tislelizumab treatment of an anaplastic thyroid carcinoma without targetable genomic alterations: a case report by Jingjing Chai, Jiaqi Lv, Jian Xiong, Xiuwen Chen, Senyuan Luo, Zhiguo Luo, Zhiguo Luo, Ming Luo

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A genome-wide association study identified SNP markers and candidate genes associated with morphometric fruit quality traits in mangoes by Shamseldeen Eltaher, Jin Li, Barbie Freeman, Sukhwinder Singh, Gul Shad Ali

“…BMC Genomics…”
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Genomic analysis of the SMN1 gene region in patients with clinically diagnosed spinal muscular atrophy: a retrospective observational study by Tamaki Kato, Mamoru Yokomura, Yutaka Osawa, Kensuke Matsuo, Yuji Kubo, Taihei Homma, Kayoko Saito

Subjects: “…Genomics…”
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Genome-wide identification and expression analysis of ZF-HD family in sunflower (Helianthus annuus L.) under drought and salt stresses by Kangping Zhang, Ruqian Yan, Xiaoqing Feng, Jingjing Zhang, Yuanyuan Jiang, Lin Li, Jianzhong Guo, Xianping Zhang

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Review (Swedish): Pontus Folkesson, Att skola en stormakt: Framväxten av 1600-talets skolsystem genom lokalsamhällets aktörer by Esbjörn Larsson

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Trends in genome diversity of small populations under a conservation program: a case study of two French chicken breeds by Bortoluzzi, Chiara, Restoux, Gwendal, Rouger, Romuald, Desnoues, Benoit, Petitjean, Florence, Bosse, Mirte, Tixier-Boichard, Michèle

“…This was true for both pedigree and genomic inbreeding but also for the genetic load estimated from functionally important genome-wide variants. …”
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High-efficiency biodegradation of crude oil and p-hydroxybenzoic acid by Acinetobacter haemolyticus JS-1: Integrated characterization and genomic analysis by Weiyi Tao, Jijie Lu, Junzhang Lin, Mingshan Ding, Weidong Wang, Shuang Li

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Fully automated extraction of high-quality total nucleic acids from FFPE specimens for comprehensive genomic profiling of solid tumors by Kristopher Amirault, Michael Collins, Luca Beker, Brandon Mills, Martina Werner, Jonathan Andreas, Daniel Hartman, Jordan Dargert, Vanessa Process, Sean Cederlund, Thuy Dao, Linnea Menin, Molly Ferrara, Andrew Briggs, Joshua Shreve, Daniel Metzger, Angela Stout, Erin Deblasi, Jie An, Taylor Jensen, Shengle Zhang, Vinesh Rana, Bryn Burlingame, Ulrich Thomann, Durga Prasad Dash, Sha Liao, Jeffrey M. Conroy, Eugenio Daviso

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A novel virulent core genome multilocus sequence type CT 11424 of Listeria monocytogenes isolate causing stillbirth in Bangladesh by Muntasir Alam, Md Saiful Islam, M. Ishrat Jahan, Arpita Shyama Deb, Afruna Rahman, Zahidul Islam, Atique Iqbal Chowdhury, Kazi Munisul Islam, Mohammad Zahid Hossain, Dilruba Ahmed, Shams El Arifeen, Emily S. Gurley, Mustafizur Rahman

“…An expert panel evaluated all reports to determine the role of L. monocytogenes infection in the causal chain of stillbirth. Genomic characterization included multilocus sequence typing (MLST), core genome MLST (cgMLST), serotyping, and the presence or absence of virulence genes. …”
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Genome data based deep learning identified new genes predicting pharmacological treatment response of attention deficit hyperactivity disorder by Yilu Zhao, Zhao Fu, Eric J. Barnett, Ning Wang, Kangfuxi Zhang, Xuping Gao, Xiangyu Zheng, Junbin Tian, Hui Zhang, XueTong Ding, Shaoxian Li, Shuyu Li, Qingjiu Cao, Suhua Chang, Yufeng Wang, Stephen V. Faraone, Li Yang

“…The current study employed a comprehensive approach, combining genome-wide association analyses (GWAS) and deep learning (DL) methods, to elucidate the genetic underpinnings of pharmacological treatment response in ADHD. …”
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Prognosis conferred by molecular features of appendix-derived Pseudomyxoma Peritonei by Ruiqing Ma, Guojun Li, Yingjiang Ye, Lei Liang, Chong Wang, Haipeng Zhou, Pu Zhang, Lubiao An, Guanjun Shi, Qian Chen, Hongbin Xu, Zhidong Gao

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Genome wide identification of Dof transcription factors in Carmine radish reveals RsDof33 role in cadmium stress and anthocyanin biosynthesis by Caiming Gou, Jia Li, Bo Chen, Guoting Cheng, Zhangfei Zheng, Hua Peng, Ahmed H. El-Sappah

“…Dof-TFs are critical in regulating plant growth, development, stress responses, and signal transduction.This work comprehensively examined the structure, evolution, and expression of the carmine radish Dof gene and its behavior under cadmium (Cd) stress. The radish genome has 59 RsDofs, which are divided into nine clusters (A: 8, B1: 10, B2: 10, C1: 3, C2.1: 5, C2.2: 4, C3: 11, D1: 4, and D2: 4). …”
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