Genomic Analysis of Indel and SV Reveals Functional and Adaptive Signatures in Hubei Indigenous Cattle Breeds by Liangyu Shi, Pu Zhang, Bo Yu, Lei Cheng, Sha Liu, Qing Liu, Yuan Zhou, Min Xiang, Pengju Zhao, Hongbo Chen

“…Population structure analysis revealed genetic differentiation among the breeds, with Wuling cattle showing the highest differentiation. …”
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Comparative genomics of the parasite Trichomonas vaginalis reveals genes involved in spillover from birds to humans by Steven A. Sullivan, Jordan C. Orosco, Francisco Callejas-Hernández, Frances Blow, Hayan Lee, T. Rhyker Ranallo-Benavidez, Andrew Peters, Shane R. Raidal, Yvette A. Girard, Christine K. Johnson, Krysta H. Rogers, Richard Gerhold, Hayley Mangelson, Ivan Liachko, Harsh Srivastava, Chris Chandler, Daniel Berenberg, Richard A. Bonneau, Po-Jung Huang, Yuan-Ming Yeh, Chi-Ching Lee, Hsuan Liu, Ting-Wen Chen, Petrus Tang, Cheng-Hsun Chiu, Michael C. Schatz, Jane M. Carlton

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Transcriptome and metabolome analysis reveals different photosynthetic characteristics of mulberry trees with different ploidy levels by Dan Liu, Qiang Lin, Sheng Huang, Rongli Mo, Xiaomei Lu, Yanrong Zeng, Guangshu Zhu, Chaohua Zhang, Changyu Qiu

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Intracellular niche-specific profiling reveals transcriptional adaptations required for the cytosolic lifestyle of Salmonella enterica. by TuShun R Powers, Amanda L Haeberle, Alexander V Predeus, Disa L Hammarlöf, Jennifer A Cundiff, Zeus Saldaña-Ahuactzi, Karsten Hokamp, Jay C D Hinton, Leigh A Knodler

“…Virulence genes that are typically associated with extracellular bacteria, namely Salmonella pathogenicity island 1 (SPI1) and SPI4, showed increased expression in the cytosol compared to vacuole. Our study reveals that the cytosolic and vacuolar S. Typhimurium virulence gene programs are unique to, and tailored for, residence within distinct intracellular compartments. …”
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Proteomic analysis reveals potential biomarker candidates in serous ovarian tumors – a preliminary study by Shona Pedersen, Alaaeldin Mohamed, Hubert Krzyslak, Latifa Al-Kaabi, Mohannad Abuhaweeleh, Ala-Eddin Moustafa, Lina Ghabreau, Semir Vranic, Bent Honoré

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Multiomics and Systematic Analyses Reveal the Roles of Hemoglobin and the HIF‐1 Pathway in Polycystic Ovary Syndrome by Guiquan Wang, Weian Mao, Yurong Zhang, Haiyan Yang, Ming Zhu, Yan Li, Wei Chen, Yi Chen, Chen Lou, Ping Li, Hsun‐Ming Chang, Shuai Yuan, Yue Zhao, Liangshan Mu

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INTEGRATION OF FORMAL DYNAMIC FEATURES IN THE PERSONALITY STRUCTURE OF STUDENTS REVEALING DIFFERENT LEVELS OF COMMUNICATION ACTIVITY by Tatyana V. Belykh, Anastasia M. Mairamyan

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Transcriptomic profiling of severe and critical COVID-19 patients reveals alterations in expression, splicing and polyadenylation by Marjorie Labrecque, Elsa Brunet-Ratnasingham, Laura K. Hamilton, Daniel Auld, Alexandre Montpetit, Brent Richards, Madeleine Durand, Simon Rousseau, Andrés Finzi, Daniel E. Kaufmann, Martine Tetreault

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Direct RNA sequencing reveals chicken post-transcriptional modifications in response to Campylobacter jejuni inoculation by Yanan Zhao, Yuanmei Wang, Yanru Ren, Long Liu, Tianyi Wang, Liying Liu, Xianyao Li

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Remote sensing reveals the role of forage quality and quantity for summer habitat use in red deer by Thomas Rempfler, Christian Rossi, Jan Schweizer, Wibke Peters, Claudio Signer, Flurin Filli, Hannes Jenny, Klaus Hackländer, Sven Buchmann, Pia Anderwald

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Advanced quantification pipeline reveals new spatial and temporal tumor characteristics in preclinical multiple myeloma by Zhixin Sun, Jacqueline M. Godbe, Alexander Zheleznyak, Brad Manion, Junhao Hu, Julie L. Prior, Kathleen Duncan, Ulugbek S. Kamilov, Monica Shokeen

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Whole genome sequencing reveals candidate causal genetic variants for spastic syndrome in Holstein cattle by Joana G.P. Jacinto, Anna Letko, Irene M. Häfliger, Eylem Emek Akyürek, Roberta Sacchetto, Arcangelo Gentile, Cord Drögemüller

“…Assuming monogenic recessive inheritance, analysis of the WGS data did not reveal any private variants common to all cases. Searching for homozygous rare variants considering each case individually, allowed the identification of a rare recessive likely pathogenic missense variant in TOR3A for one case with an allele frequency of 1.69% in a global Holstein population. …”
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Transcriptional signature of cardiac myocyte recovery in mice and human reveals persistent upregulation of epigenetic factors by Rebekka Roth, Margareta Häckh, Tilman Schnick, Carolin Rommel, Christoph Koentges, Heiko Bugger, Claudia Domisch, Michael R. Bristow, Amrut V. Ambardekar, Timothy A. McKinsey, Ralf Gilsbach, Lutz Hein, Sebastian Preissl

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Gingival spatial analysis reveals geographic immunological variation in a microbiota-dependent and -independent manner by Yasmin Jaber, Avital Sarusi-Portuguez, Yasmin Netanely, Reem Naamneh, Shahd Yacoub, Or Saar, Nadeem Darawshi, Luba Eli-Berchoer, Hagit Shapiro, Eran Elinav, Asaf Wilensky, Avi-Hai Hovav

“…Through spatial transcriptomic analysis, this study reveals distinct immunological characteristics between the buccal and palate regions of the murine gingiva, impacting natural alveolar bone loss. …”
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Analysis of microRNA expression reveals convergent evolution of the molecular control of diapause in annual killifishes by Emanuel Barth, Emanuel Barth, Mario Baumgart, Luca Dolfi, Rongfeng Cui, Marco Groth, Roberto Ripa, Aurora Savino, Dario Riccardo Valenzano, Dario Riccardo Valenzano, Matthias Platzer, Manja Marz, Alessandro Cellerino, Alessandro Cellerino

“…Analysis of recently sequenced 45 low-coverage killifish genomes revealed that the miR-430 locus contains a lower number of copies in annual-as opposed to non-annual killifish.ConclusionThe Evolution of diapause is reflected in the convergent evolution of microRNA regulation in killifishes. …”
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Integration of transcriptomic and metabolomic analysis reveals light-regulated anthocyanin accumulation in the peel of ‘Yinhongli’ plum by Bo Xiong, Yisong Li, Junfei Yao, Jialu Wang, Linlyu Han, Qingqing Ma, Taimei Deng, Ling Liao, Lijun Deng, Guochao Sun, Mingfei Zhang, Xun Wan, Siya He, Jiaxian He, Zhihui Wang

“…Transcriptomic profiling revealed 6,900 differentially expressed genes (DEGs) between YD and YL, demonstrating significant correlations between the phenylpropanoid and flavonoid biosynthetic pathways. …”
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Population genomics reveal multiple independent origins of pesticide resistance in the polyphagous pest, Tetranychus urticae by Lei Chen, Li-Xue Guo, Hua-Meng Zhang, Xiao-Nan Sun, Yu-Ting Liu, Jie Ji, Wen-Xin Xue, Nicky Wybouw, Thomas Van Leeuwen, Xiao-Feng Xue, Xiao-Yue Hong, Jing-Tao Sun

“…Population structure and haplotype analyses point to an important role of gene flow in the spread of resistance alleles. Selection analyses reveal pesticide-driven sweeps affecting genetic diversity. …”
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Host inflammatory dynamics reveal placental immune modulation by Group B Streptococcus during pregnancy by Felicia Kuperwaser, Gal Avital, Michelle J Vaz, Kristen N Noble, Allison N Dammann, Tara M Randis, David M Aronoff, Adam J Ratner, Itai Yanai

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Integrative metabolomics and proteomics reveal the effect and mechanism of Zi Qi decoction on alleviating liver fibrosis by Xiaoying Chen, Yifan Wang, Xiaoyun Dou, Jie Wan, Jingwen Zhou, Tianci Li, Jun Yu, Fang Ye

“…Quantitative proteomics based on data independent acquisition (DIA) and non-targeted metabolomic analyses revealed the pharmacodynamic mechanism of ZQ. In addition, various cellular and molecular assays were used to detect changes in glycolysis levels in LSECs and mouse liver fibrosis models. …”
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Multi-omic analyses reveal PTPN6’s impact on tumor immunity across various cancers by Yuchen Zhong, Weiyuan Zhang, Chaojing Zheng, Hongyu Wu, Jun Luo, Ziming Yuan, Hao Zhang, Chunlin Wang, Haiyang Feng, Meng Wang, Qian Zhang, Haixing Ju, Guiyu Wang

“…Single-cell analysis revealed that PTPN6 is predominantly localized in macrophages, B cells, and dendritic cells within the tumor microenvironment, implying its involvement in regulating immune cell function. …”
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