Integrative analysis of single-cell and transcriptome sequencing with experimental validation reveals PKHD1L1 as a novel biomarker in lung adenocarcinoma by Xiangqian Zhang, Jie Wang, Hanyang Su, Xiaojin Liu

“…Abstract Polycystic kidney and hepatic disease 1-like protein 1 (PKHD1L1) is predicted to encode a large type I transmembrane protein involved in hearing transmission and mediating cellular immunity under physiological conditions. …”
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Crayfish optimization based pixel selection using block scrambling based encryption for secure cloud computing environment by Vikas K. Soman, V. Natarajan

“…The Block Scrambling Based Encryption algorithm is then used to encode the secret image, providing an additional layer of security. …”
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Genomic Analysis of a New Estrogen-Degrading Bacterial Strain, Acinetobacter sp. DSSKY-A-001 by Qing Qiu, Ping Wang, Hui Kang, Yu Wang, Kejian Tian, Hongliang Huo

“…Through this gene sequence analysis, we identified genes predicted to encode the previously detected enzymes, catechol 1,2-dioxygenase, dioxygenase, and 7α-hydroxysteroid dehydrogenase, as well as six other enzymes that may be involved in estrogen degradation. …”
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Whole-Genome Sequencing and Comparative Genome Analysis Provided Insight into the Predatory Features and Genetic Diversity of Two Bdellovibrio Species Isolated from Soil by Omotayo Opemipo Oyedara, Aldo Segura-Cabrera, Xianwu Guo, Temidayo Oluyomi Elufisan, Rafael Alejandro Cantú González, Mario A. Rodríguez Pérez

“…SKB1291214, SSB218315, W, and B. exovorus JJS was 1343, 113, 857, and 1572, respectively. These unique genes encode hydrolytic, chemotaxis, and transporter proteins which might be useful for predation in the Bdellovibrio strains. …”
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Biofilm removal mediated by Salmonella phages from chicken-related sources by Zhenzhen Ning, Lingling Zhang, Linlin Cai, Xinglian Xu, Ying Chen, Huhu Wang

“…Complete genome sequence analysis revealed that the genomes of phage CW1 is composed of 41763 bp with 58 open reading frames (ORFs) and a holin-endolysin system and it does not encode any virulence or lysogeny. A phage cocktail consisted of CW1 (with the broadest spectrum of 70.49 %) and CW11, M4 and M10 (with a high lytic activity of more than 67.11 %) was established. …”
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In-depth Analysis of IS6110 Genomic Variability in the Mycobacterium tuberculosis Complex by Jessica Comín, Jessica Comín, Isabel Otal, Isabel Otal, Isabel Otal, Sofía Samper, Sofía Samper, Sofía Samper

“…It contains the overlapping reading frames orfA and orfB that encode a transposase. Its genetic variability is difficult to study because multiple copies are present in the genome. …”
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slendr: a framework for spatio-temporal population genomic simulations on geographic landscapes by Petr, Martin, Haller, Benjamin C., Ralph, Peter L., Racimo, Fernando

“…With this framework, the users can programmatically and visually encode spatial population ranges and their temporal dynamics (i.e., population displacements, expansions, and contractions) either on real Earth landscapes or on abstract custom maps, and schedule splits and gene-flow events between populations using a straightforward declarative language. …”
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Construction of Shoot Apical Meristem cDNA Yeast Library of <i>Brassica napus</i> L. and Screening of Proteins That Interact with the Inflorescence Regulatory Factors BnTFL1s by Lingxiong Zan, Haidong Liu, Xutao Zhao, Dezhi Du, Kaixiang Li

“…<i>BnTFL1s</i> (<i>BnaA10.TFL1</i> and <i>BnaC09.TFL1</i>), which encode the transcription factor <i>TERMINAL FLOWER 1 (TFL1),</i> have previously been identified as candidate genes controlling this trait through map-based cloning. …”
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TransformerPayne: Enhancing Spectral Emulation Accuracy and Data Efficiency by Capturing Long-range Correlations by Tomasz Różański, Yuan-Sen Ting, Maja Jabłońska

“…Analysis of TransformerPayne's attention maps revealed that they encode interpretable features common across many spectral lines of chosen elements. …”
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Synaptic enrichment and dynamic regulation of the two opposing dopamine receptors within the same neurons by Shun Hiramatsu, Kokoro Saito, Shu Kondo, Hidetaka Katow, Nobuhiro Yamagata, Chun-Fang Wu, Hiromu Tanimoto

“…In the fruit fly Drosophila melanogaster, Dop1R1 and Dop2R encode the D1- and D2-like receptors, respectively, and are reported to oppositely regulate intracellular cAMP levels. …”
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Avirulence depletion assay: Combining R gene-mediated selection with bulk sequencing for rapid avirulence gene identification in wheat powdery mildew. by Lukas Kunz, Jigisha Jigisha, Fabrizio Menardo, Alexandros G Sotiropoulos, Helen Zbinden, Shenghao Zou, Dingzhong Tang, Ralph Hückelhoven, Beat Keller, Marion C Müller

“…Wheat resistance breeding frequently relies on the use of resistance (R) genes that encode diverse immune receptors which detect specific avirulence (AVR) effectors and subsequently induce an immune response. …”
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Using informative priors to account for identifiability issues in occupancy models with identification errors by Monchy, Célian, Etienne, Marie-Pierre, Gimenez, Olivier

“…Through simulations, we compare different prior choices that encode varying levels of information, ranging from cases where no prior knowledge is available, to instances with accurate metrics on the performance of the identification, and scenarios based on generally accepted assumptions. …”
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Lake salinization on the Qinghai–Tibetan Plateau alters viral community composition and lifestyles by Yuan-Guo Xie, Yan-Ling Qi, Zhen-Hao Luo, Yan-Ni Qu, Jian Yang, Shi-Qiang Liu, Hai-long Yang, Dan-Wei Xie, Zimeng Wang, Hong-Chen Jiang, Zheng-Shuang Hua

“…These shifts are mirrored in the prokaryotic communities, with Alphaproteobacteria and their infecting temperate viruses, notably Casadabanvirus, becoming more prevalent in higher salinity zones. Viral genomes encode genes associated with osmotic stress adaptation, DNA recombination, and nutrient transport, which may facilitate host adaptation to saline stress. …”
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Candidate genes for productivity identified by genome-wide association study with indicators of class in the Russian meat merino sheep breed by A. Y. Krivoruchko, O. A. Yatsyk, E. Y. Safaryan

“…Determining the location of the analyzed SNPs relative to the latest annotation Oar_rambouillet_v1.0 allowed to identify 11 candidate genes presumably associated with the formation of a complex of phenotypic traits of animals in the exhibition group: RXFP2, ALOX5AP, MEDAG, OPN5, PRDM5, PTPRT, TRNAS-GGA, EEF1A1, FRY, ZBTB21-like, and B3GLCT-like. The listed genes encode proteins involved in the control of the cell cycle and DNA replication, regulation of cell proliferation and apoptosis, lipid and carbohydrate metabolism, the development of the inflammatory process and the work of circadian rhythms. …”
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Epigene functional diversity: isoform usage, disordered domain content, and variable binding partners by Leroy Bondhus, Aileen A. Nava, Isabelle S. Liu, Valerie A. Arboleda

“…Conclusions Here we identify significant differences in isoform usage, disordered domain content, and variable binding partners between human epigenes and non-epigenes using various functional genomics datasets from Ensembl, ENCODE, GTEx, HPO, LINCS L1000, and BrainSpan. Our results contribute new knowledge to the growing field focused on developing targeted therapies for diseases caused by epigene mutations, such as chromatinopathies and cancers.…”
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Ethnicity-specific distribution of <em>TRPM8</em> gene variants in Eurasian populations: signs of selection by T. A. Potapova, A. G. Romashchenko, N. S. Yudin, M. I. Voevoda

“…The TRPM8 gene encodes the ion channel, which is a cold receptor in afferent neurons of the mammalian somatosensory system. …”
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Unified Visual-Aware Representations for Data Analytics by Ladislav Peska, Ivana Sixtova, David Hoksza, David Bernhauer, Jakub Lokoc, Tomas Skopal

“…The desired property of the visualizations is the ability to visually encode the semantic features of the original data. …”
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Decreased SynMuv B gene activity in response to viral infection leads to activation of the antiviral RNAi pathway in C. elegans. by Ashwin Seetharaman, Himani Galagali, Elizabeth Linarte, Mona H X Liu, Jennifer D Cohen, Kashish Chetal, Ruslan Sadreyev, Alex J Tate, Taiowa A Montgomery, Gary Ruvkun

“…About one-third of the score of mutants that enhance RNAi are in synMuv B genes, identified 30 years ago in unrelated screens for increased growth factor signaling. Many synMuv B genes encode dREAM complex chromatin-regulatory proteins found in nearly all animals and plants. …”
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Detector development for spin-echo SANS techniques using ZnS:Ag/6LiF and 6Li glass scintillators by Giacomo Mauri, G. Jeff Sykora, Gregory N. Smith, Steven R. Parnell, Robert M. Dalgliesh, Dirk Honecker, Sarah E. Mann, Erik M. Schooneveld, Nigel J. Rhodes

“…Abstract Neutron spin-echo techniques exploit Larmor precession of the neutron spin to encode either the scattering angle or energy. These are powerful means to extend the measurable momentum transfer (Q) and energy (E) range in neutron scattering measurements. …”
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The Central Roles of Noncoding RNA in Estrogen-Dependent Female Reproductive System Tumors by Jiajie Tu, Huan Yang, Lei Jiang, Yu Chen, Yu Chen, Zhe Li, Lei Li, Yuanyuan Zhang, Xiaochun Chen, He Chen, Zhiying Yu

“…Noncoding RNAs (ncRNAs) are defined as RNAs that do not encode proteins, including microRNAs (miRNAs) and long noncoding RNAs (lncRNAs), both of which have been reported in estrogen-dependent female reproductive system tumors. …”
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