Pheochromocytoma in Congenital Cyanotic Heart Disease by Carmen Aresta, Gianfranco Butera, Antonietta Tufano, Giorgia Grassi, Livio Luzi, Stefano Benedini

“…Studies on genome-wide transcription patterns have shown that many genetic alterations implicated in pheochromocytoma-paraganglioma (P-PGL) syndromes cluster in a common cellular pathway leading to aberrant activation of molecular response to hypoxia in normoxic conditions (the pseudohypoxia hypothesis). …”
Get full text

Insights into incompatible plasmids in multidrug-resistant Raoultella superbugs by Jiao Feng, Changxin Wu, Dongsheng Zhou, Lingfei Hu, Kai Mu, Zhe Yin

“…This study aims to elucidate the genomic features of novel incompatible plasmids in MDR Raoultella by presenting 13 complete plasmid sequences from four isolates, along with an analysis of 16 related plasmids from GenBank. …”
Get full text

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.…”
Get full text

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. …”
Get full text

Prognostic models of immune-related cell death and stress unveil mechanisms driving macrophage phenotypic evolution in colorectal cancer by Hao Liu, Chuhan Zhang, Sanfei Peng, Yuhan Yin, Yishi Xu, Sihan Wu, Liping Wang, Yang Fu

“…Furthermore, we performed enrichment analyses and deconvolution algorithms to elucidate the complex interactions between immune cell infiltration and the processes of PCD and stress within a substantial array of transcriptomic data from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus data base (GEO) related to CRC. …”
Get full text

Parental conflicts and resource sharing: Evolutionary trade-off by Ruby Dhar, Arun Kumar, Subhradip Karmakar

“…There is a hypothetical scenario in which parents can influence gene expression in embryos directly. Similar to genomic imprinting, this may happen as a result of sexual selection in males competing with other males to gain more resources for their offspring from their mothers. …”
Get full text

ASSOCIATION BETWEEN POLYMORPHISMS IN GENES ENCODING 2′-5′-OLIGOADENYLATE SYNTHETASES AND THE HUMORAL IMMUNE RESPONSE UPON VACCINATION AGAINST TICK-BORNE ENCEPHALITIS by N. S. Yudin, A. V. Igoshin, S. L. Lutova, Ya. Gon, M. I. Voevoda, V. A. Belyavskaya

“…Levels of specific IgG antibodies against tick-borne encephalitis virus and interleukin 4 (IL-4) were analyzed. Genomic DNA samples were genotyped for the SNPs rs2285932, rs2072136, rs1293762, rs15895 and rs1732778 in genes encoding 2’-5’-oligoadenylate synthetases OAS2 and OAS3. …”
Get full text

Single nucleotide polymorphism rs110861313 in the intergenic region of chromosome 23 is associated with the development of leukosis in the Russian Black Pied cattle by R. B. Aitnazarov, E. V. Ignatieva, T. A. Agarkova, N. G. Dvoeglazov, N. A. Osipova, V. V. Khramtsov, N. S. Yudin

“…In recent years, using a genome-wide association study (GWAS), a number of single nucleotide polymorphisms (SNPs) have been suggested to be associated with susceptibility to leukemia in cattle. …”
Get full text

Identification of core biomarkers for tuberculosis progression through bioinformatics analysis and in vitro research by Zhanpeng Chen, Qiong Wang, Quan Ma, Jinyun Chen, Xingxing Kong, Yuqin Zeng, Lanlan Liu, Shuihua Lu, Xiaomin Wang

“…Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis indicated that these genes are primarily associated with fatty acid degradation, pyruvate metabolism, arginine and proline metabolism, as well as cholesterol metabolism signaling pathways. …”
Get full text

HDAC10 and its implications in Sézary syndrome pathogenesis by Monika Pieniawska, Karolina Rassek, Bogumiła Skwara, Magdalena Żurawek, Iwona Ziółkowska-Suchanek, Lydia Visser, Monique Lodewijk, Małgorzata Sokołowska-Wojdyło, Małgorzata Sokołowska-Wojdyło, Berenika Olszewska, Roman J. Nowicki, Roman J. Nowicki, Tomasz Stein, Aleksandra Dańczak-Pazdrowska, Adriana Polańska, Marta Szymoniak-Lipska, Natalia Rozwadowska, Katarzyna Iżykowska

“…Histone deacetylase inhibitors have gained attention in CTCL treatment with promising results, but they expose limited specificity and strong side effects. Recent genomic studies underscore the role of epigenetic modifiers in CTCL pathogenesis, prompting an investigation into HDAC10, a member of class IIb HDACs, in SS. …”
Get full text

Identification of critical biomarkers and immune landscape patterns in glioma based on multi-database by Hanzhang Yuan, Jingsheng Cheng, Jun Xia, Zeng Yang, Lixin Xu

“…Patients and methods Differentially expressed genes (DEGs) of glioma were downloaded from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) databases. …”
Get full text

Genetic Association and Expression Correlation between Colony-Stimulating Factor 1 Gene Encoding M-CSF and Adult-Onset Still’s Disease by Yi-Ming Chen, Wei-Ting Hung, Wan-Chun Chang, Chia-Wei Hsieh, Wen-Hung Chung, Joung-Liang Lan, Ning-Rong Gung, Yun-Shien Lee, Der-Yuan Chen, Shuen-Iu Hung

“…To assess the genetic susceptibility of AOSD, we conducted a genome-wide association study (GWAS) on a cohort of 70 AOSD cases and 688 controls following a replication study of 36 cases and 200 controls and meta-analysis. …”
Get full text

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. …”
Get full text

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. …”
Get full text

Exosomes from LPS-Stimulated hDPSCs Activated the Angiogenic Potential of HUVECs In Vitro by Xiangyu Huang, Wei Qiu, Yuhua Pan, Jianjia Li, Zhao Chen, Kaiying Zhang, Yifei Luo, Buling Wu, Wenan Xu

“…Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis was used to estimate the signaling pathways associated with the inflammation-induced angiogenesis process. …”
Get full text

Molecular Phylogenetics and Estimation of Evolutionary Divergence and Biogeography of the Family Cordycipitaceae (Ascomycota, Hypocreales) by Huili Pu, Jiao Yang, Nemat O. Keyhani, Lixia Yang, Minhai Zheng, Chenghao Qiu, Yuchen Mao, Junya Shang, Yongsheng Lin, Chengjie Xiong, Longbing Lin, Pengyu Lai, Yanbin Huang, Xin Yuan, Huiling Liang, Longfei Fan, Xiaoli Ma, Chunjin Qiu, Junzhi Qiu

“…Based on Bayesian evolutionary analysis of five genomic loci(the small subunit of ribosomal RNA (SSU) gene, the large subunit of ribosomal RNA (LSU) gene, the translation elongation factor 1-α (<i>tef1-α</i>) gene, the largest subunit of RNA polymerase II (<i>rpb1</i>), and the second largest subunit of RNA polymerase II (<i>rpb2</i>), we inferred the divergence times for members of the Cordycipitaceae, improving the internal phylogeny of this fungal family. …”
Get full text

Potential biomarkers and immune infiltration linking endometriosis with recurrent pregnancy loss based on bioinformatics and machine learning by Jianhui Chen, Qun Li, Xiaofang Liu, Fang Lin, Yaling Jing, Jiayan Yang, Lianfang Zhao

“…Moreover, immune cell infiltration was estimated using CIBERSORTx, and the Cancer Genome Atlas (TCGA) database was employed to elucidate the role of key genes in endometrial carcinoma (EC).Results26 common differentially expressed genes (DEGs) were screened in both diseases, three of which were identified as common core genes (MAN2A1, PAPSS1, RIBC2) through the combination of WGCNA, PPI network, and machine learning-based feature selection. …”
Get full text

Survival outcome prediction of esophageal squamous cell carcinoma patients based on radiomics and mutation signature by Ting Yan, Zhenpeng Yan, Guohui Chen, Songrui Xu, Chenxuan Wu, Qichao Zhou, Guolan Wang, Ying Li, Mengjiu Jia, Xiaofei Zhuang, Jie Yang, Lili Liu, Lu Wang, Qinglu Wu, Bin Wang, Tianyi Yan

“…The mutation signature was constructed based on whole genome sequencing data and found to be significantly associated with the prognosis of patients with ESCC. …”
Get full text

Risk of residual/recurrent cervical diseases in HPV-positive women post-conization depends on HPV integration status by Wenyu Lin, Yuxuan Huang, Yan Zhang, Lixiang Huang, Hongning Cai, Guanxiang Huang, Ye Li, Qiaoyu Zhang, Huifeng Xue, Binhua Dong, Pengming Sun

“…HPV integration test was performed using the high-throughput viral integration detection (HIVID), a sensitive method for genome-wide survey of HPV integration breakpoints. …”
Get full text

Effect of the gut microbiome in glaucoma risk from the causal perspective by He Chen, Meng Zhou, Zicheng Zhang, Siqi Bao, Jia Qu, Yaxuan Wu, Ronghua Shi

“…However, the causal effect of GM on glaucoma risk remains to be determined.Methods and analysis We conducted two-sample bidirectional Mendelian randomisation (MR) analyses to explore the causal association between GM and glaucoma. Genome-wide association study summary statistics of 196 GM taxa (n=18 340) and glaucoma (18 902 cases and 358 375 controls) were obtained from MiBioGen and FinnGen Consortium. …”
Get full text