A Bidirectional Mendelian Randomization Study Investigating the Causal Relationship Between Ankylosing Spondylitis and Chronic Obstructive Pulmonary Disease by Pan D, Dai X, Li P, Xue L

“…The analysis utilized publicly available statistics on AS and COPD from the Genome-wide Association Study (GWAS). The primary MR method employed was Inverse-Variance Weighting (IVW), supplemented by additional MR methods such as weighted median, MR-Egger, simple mode, and weighted mode. …”
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Spatio‐Temporal Changes in Effective Population Size in an Expanding Metapopulation of Eurasian Otters by Nia Evelyn Thomas, Elizabeth A. Chadwick, Michael W. Bruford, Frank Hailer

“…We obtained clear bottleneck signals in East England, and signals of recent population expansion in Wales and South West England in some analyses, consistent with national otter surveys and recent findings from whole‐genome sequencing. Analyses that did not account for spatial genetic structuring yielded strong spurious signals of United Kingdom‐wide population expansion, and Ne estimates from these analyses were suppressed by a factor of 3–4. …”
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Causal Effects of Sleep Traits on Angina Pectoris: Mediation by Cardiovascular Risk Factors by Zeng C, Ke Y, Li H, Zhang C, Chen J, Chen M

“…Our study aims to declare the causality of sleep traits on AP by Mendelian randomization (MR) analyses.Methods: Genome-wide association study (GWAS) data of sleep traits (sleep duration, insomnia, nap during day, chronotype, getting up in morning, narcolepsy, snoring) were obtained from the UK Biobank. …”
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Analysis of significantly associated regions and candidate genes for dwarf stem trait in Brassica napus based on BSA-sequencing by ZHAO Weiguo, TA Na, WANG Hao, YANG Zelin

“…[Results] (1) The dwarf trait of B. napus DW1 was a quality trait and was controlled by one pair of incomplete dominant genes. (2) Twenty-two genomic regions significantly associated with dwarf trait were identified within the 21.78-23.88 Mb region on chromosome A06, with the maximum interval of 46.71 kb and the minimum interval of 0.64 kb. (3) Potential candidate genes, including BnaA06g27050D, BnaA06g34100D, BnaA06g34810D, BnaA06g35080D , and BnaA06g36480D , were identified in significantly associated regions on chromosome A06, which were related to the regulation of auxin and gibberellin signal transduction, respectively. …”
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Repression of CADM1 transcription by HPV type 18 is mediated by three-dimensional rearrangement of promoter-enhancer interactions. by Karen Campos-León, Jack Ferguson, Thomas Günther, C David Wood, Steven W Wingett, Selin Pekel, Christy S Varghese, Leanne S Jones, Joanne D Stockton, Csilla Várnai, Michelle J West, Andrew Beggs, Adam Grundhoff, Boris Noyvert, Sally Roberts, Joanna L Parish

“…Analysis of CTCF binding in the host cell genome by ChIP-Seq revealed that while the total number of CTCF binding sites is not altered by the virus, there are a sub-set of CTCF binding sites that are either enriched or depleted of CTCF. …”
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Elevated POSTN expression predicts poor prognosis and is associated with radioresistance in cervical cancer patients treated with radical radiotherapy by Cui-qin Huang, Wen-tao Xiao, Xiang-rong Yao, Zhi-min Li, Jun-yan He

“…We analyzed data from 92 CC patients in The Cancer Genome Atlas (TCGA) and 153 patients from our institution, assessing POSTN expression levels through mRNA analysis and immunohistochemistry (IHC). …”
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A prognostic signature of Glutathione metabolism-associated long non-coding RNAs for lung adenocarcinoma with immune microenvironment insights by Junxi Hu, Junxi Hu, Shuyu Tian, Shuyu Tian, Qingwen Liu, Qingwen Liu, Jiaqi Hou, Jiaqi Hou, Jun wu, Jun wu, Xiaolin Wang, Xiaolin Wang, Yusheng Shu, Yusheng Shu

“…This study developed a prognostic model using GSH-related lncRNAs to predict LUAD outcomes and assess tumor immunity.MethodsThis study analyzed survival data from The Cancer Genome Atlas (TCGA) and identified GSH metabolism-related lncRNAs using Pearson correlation. …”
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Sangre Por Salud (SPS) Biobank: cohort profile by Richard R Sharp, Euijung Ryu, Janet E Olson, Karen Meagher, James R Cerhan, Davinder Singh, Suzette Bielinski, Emmil Zarrugh, Marlene E Girardo, Giovanna Moreno Garzon, Valentina Hernandez, Sharon Levey, Crystal Gonzalez, Daniela B Pompa, Gabriel Q Shaibi, Lawrence Mandarino, Steven Thibodeau, Elena De Filippis

“…Additionally, we plan to obtain a more comprehensive genomic analysis on the entire cohort, ensuring greater research interest and investigation into the underlying genetic factors that contribute to disease susceptibility in this cohort.…”
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A ribodepletion and tagging protocol to multiplex samples for RNA-seq based virus detection: application to the cassava virome by Daniel H. Otron, Justin S. Pita, Murielle Hoareau, Fidèle Tiendrébéogo, Jean-Michel Lett, Pierre Lefeuvre

“…After confirming that the protocol was suitable for ribodepletion, we demonstrated it was possible to detect RNA and DNA viruses via identification of near full-size genomes. Additional phylogenetic analyses confirmed the presence of begomoviruses and ipomoviruses responsible for CMD and CBSD, respectively. …”
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Oncolytic peptide LTX-315 induces anti-pancreatic cancer immunity by targeting the ATP11B-PD-L1 axis by Meng Wang, Xing Huang, Tingbo Liang, Tianyu Tang, Gang Zhang, Minghao Lu, Zhengtao Hong, Junming Huang, Xiao Zhi

“…Both in-house tissue microarray and open accessed The Cancer Genome Atlas data sets were used to evaluate the clinical relevance in pancreatic cancer prognosis.Results LTX-315 treatment inhibited PD-L1 expression and enhanced lymphocyte infiltration in pancreatic tumors. …”
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First detection and molecular characterization of Jingmen tick virus with a high occurrence in Rhipicephalus (Boophilus) microplus collected from livestock in Cameroon (2024) by Paloma Kiwan, Eva Lopez, Morena Gasparine, Geraldine Piorkowski, Agathe Colmant, Achille Paguem, Stephanie Mvodo, Laurence Thirion, Xavier de Lamballerie, Remi Charrel, Alessandra Falchi

“…Positive JMTV pools were sequenced for partial JMTV-Segment 1 and full genome analyses. Results A total of 622 ticks, organized into 251 pools were collected from 155 cattle and nine sheep. …”
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WNT3A promotes the cementogenic differentiation of dental pulp stem cells through the FOXO1 signaling pathway by Dongmei Cheng, Yang Bao, Xue Wang, Haidong Xiang, Tianyuan Guo, Yong Du, Zhiyong Zhang, Han Guo

“…Pathway enrichment exploration was conducted utilizing gene ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), Gene Set Enrichment Analysis (GSEA), and Metascape tools. …”
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Expression of CSTF2 in oral squamous cell carcinoma and its relationship with immune infiltration and poor prognosis by Zumulaiti Aierken, Muertiza Muhetaer, Zhang Lei, Ainiwaerjiang Abudourousuli, Ainiwaerjiang Abudourousuli

“…However, its specific association with patient prognosis and immune cell infiltration in OSCC remains insufficiently understood.MethodsTo assess the expression levels and prognostic implications of CSTF2 in OSCC, comprehensive data were acquired from The Cancer Genome Atlas (TCGA) and subsequently normalized. Immunohistochemical staining of tissue microarrays was performed to analyze CSTF2 expression in the OSCC samples. …”
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Multi-omics unveils strain-specific neuroactive metabolite production linked to inflammation modulation by Bacteroides and their extracellular vesicles by Basit Yousuf, Walid Mottawea, Galal Ali Esmail, Nazila Nazemof, Nour Elhouda Bouhlel, Emmanuel Njoku, Yingxi Li, Xu Zhang, Zoran Minic, Riadh Hammami

“…This study investigated the strain-specific production of neuroactive metabolites by 18 Bacteroidetes (12 Bacteroides, 4 Phocaeicola, and 2 Parabacteroides) using multi-omics approaches. Genomic analysis revealed a significant potential for producing GABA, tryptophan, tyrosine, and histidine metabolism-linked neuroactive compounds. …”
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Selective suppression of influenza A/H5N1 virus replication <i>in vitro</i> using nanocomplexes consisting of siRNA and aminopropylsilanol nanoparticles by Marina N. Repkova, Asya S. Levina, Oleg Yu. Mazurkov, Elena V. Makarevich, Ekaterina I. Filippova, Natalya A. Mazurkova, Valentina F. Zarytova

“…The most effective nanocomplex that contained siRNA targeted at the chosen region of mRNA segment 5 of the viral genome reduced virus replication in the culture by a factor of 630. …”
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Identification and functional analysis of energy metabolism and pyroptosis-related genes in diabetic nephropathy by Shan He, Jian Ye, Yu Wang, Lu yang Xie, Si Yi Liu, Qin kai Chen

“…Subsequent analyses included Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment, Gene Set Enrichment Analysis (GSEA), and Protein-Protein Interaction (PPI) network analysis. …”
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Spatial and temporal epidemiology of SARS-CoV-2 virus lineages in Teesside, UK, in 2020: effects of socio-economic deprivation, weather, and lockdown on lineage dynamics by Moss, E.D., Rushton, S.P., Baker, P., Bashton, M., Crown, M.R., dos Santos, R.N., Nelson, A., O’Brien, S.J., Richards, Z., Sanderson, R.A., Yew, W.C., Young, G.R., McCann, C.M., Smith, D.L.

“…As the outbreak continued, new variants were detected through two national monitoring programmes that conducted genomic sequencing. This study aimed to determine the effects of weather, demographic features, and national and local COVID-19 restrictions on positive PCR tests at a sub-regional scale. …”
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The heterogeneity of NOTCH1 to tumor immune infiltration in pan-cancer by XiaoJun Duan, Rihan Wu, Mingyang Zhang, Kexin Li, Lei Yu, Huirong Sun, Xingxia Hao, Changshan Wang

“…In this study, the data originated from the Genotype-Tissue Expression (GTEx) and the Cancer Genome Atlas (TCGA) databases were input into multiple online bioinformatic tools to study the characteristics of NOTCH1 in pan-cancer. …”
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Structures and strategies for retaining an international pediatric cohort from birth: Lessons from The Environmental Determinants of Diabetes in the Young (TEDDY) study by Patricia Gesualdo, Jessica Melin, Rachel Karban, Claire Crouch, Michael Killian, Diane Hopkins, Annika Adamsson, Joanna Stock, Suzanne Bennett Johnson, Judith Baxter

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Enhancing salinity tolerance in cultivated rice through introgression of African rice genes and application of moringa leaf extract by Heba A. Saleh, Shaimaa M. N. Tourky, Farag Ibraheem, Samy A. Abo-Hamed, Wafaa M. Shukry, Walid H. Elgamal, Eman M. Elghareeb

“…It demonstrates the potential of African rice-derived genomic fragments and MLE priming in mitigating salinity stress, highlighting their use as a sustainable strategy for increasing rice production in salt-affected soils.…”
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