Caution when using network partners for target identification in drug discovery by Dandan Tan, Yiheng Chen, Yann Ilboudo, Kevin Y.H. Liang, Guillaume Butler-Laporte, J. Brent Richards

“…We used the IntAct database to find physically interacting proteins of genes identified by exome-wide association studies (ExWASs), genome-wide association studies (GWASs) combined with a locus-to-gene mapping algorithm called the Effector Index, and Genetic Priority Score (GPS), which integrated eight genetic features with drug indications from the Open Targets and SIDER databases. …”
Get full text

Prion protein promotes copper toxicity in Wilson disease by Raffaella Petruzzelli, Federico Catalano, Roberta Crispino, Elena V. Polishchuk, Mariantonietta Elia, Antonio Masone, Giada Lavigna, Anna Grasso, Maria Battipaglia, Lucia Vittoria Sepe, Banu Akdogan, Quirin Reinold, Eugenio Del Prete, Diego Carrella, Annalaura Torella, Vincenzo Nigro, Enrico Caruso, Nicole Innocenti, Emiliano Biasini, Ludmila V. Puchkova, Alessia Indrieri, Ekaterina Y. Ilyechova, Pasquale Piccolo, Hans Zischka, Roberto Chiesa, Roman S. Polishchuk

“…Unfortunately, the molecular targets for normalizing Cu homeostasis in Wilson disease remain poorly understood. Here, using genome-wide screening, we identified the cellular prion protein (PrP) as an important mediator of Cu toxicity in WD. …”
Get full text

Protocol of the Nurses’ Mental Health Study (NMHS): a nationwide hospital multicentre prospective cohort study by Jiaxin Yang, Chongmei Huang, Shuiyuan Xiao, Xuting Li, Meng Ning, Zengyu Chen, Yusheng Tian, Qiang Yu, Yamin Chen, Ya-Min Li

Get full text

Polygenic prediction of human longevity on the supposition of pervasive pleiotropy by M. Reza Jabalameli, Jhih-Rong Lin, Quanwei Zhang, Zhen Wang, Joydeep Mitra, Nha Nguyen, Tina Gao, Mark Khusidman, Sanish Sathyan, Gil Atzmon, Sofiya Milman, Jan Vijg, Nir Barzilai, Zhengdong D. Zhang

“…We showed that coefficients derived from our ensemble model could potentially reveal an interesting pattern of genomic pleiotropy specific to lifespan. We assessed the predictive performance of our model for distinguishing the enrichment of exceptional longevity among long-lived individuals in two replication cohorts (the Scripps Wellderly cohort and the Medical Genome Reference Bank (MRGB)) and showed that the median lifespan in the highest decile of our composite prognostic index is up to 4.8 years longer. …”
Get full text

Relationship between personality traits and spontaneous coronary artery dissection risk: evidence from Mendelian randomization by Kun Zheng, Kun Zheng, Mengdi Wu, Junhua Wang, Junhua Wang, Jinjin Sun, Yuqian Li, Peng Wang, Zhiyue Zhang, Xiuming Pan, Yifeng Yang, Tianqi Li, Yujie Guo

“…Besides, data regarding SCAD and personality were extracted from expansive genome-wide association studies (GWAS), and rigorous statistical inferences were made using inverse variance weighting (IVW) and ancillary methodologies. …”
Get full text

Phage vB_Kpn_HF0522: Isolation, Characterization, and Therapeutic Potential in Combatting K1 Klebsiella pneumoniae Infections by Yan T, Wang Q, Ma C, Teng X, Gong Z, Chu W, Zhou Q, Liu Z

“…Analysis of vB_Kpn_HF0522 characteristics, including optimal multiplicity of infection (MOI), one-step growth curve, host range, stability in different environments, and adsorption capacity. The phage genomic sequence was analyzed to explore evolutionary relationships. …”
Get full text

An initial exploration of core collection construction and DNA fingerprinting in Elymus sibiricus L. using SNP markers by Xinrui Li, Xinrui Li, Xinrui Li, Daping Song, Mingfeng Li, Daxu Li, Minghong You, Yan Peng, Jiajun Yan, Shiqie Bai

“…Additionally, we identified 290 SNP loci from among the high-quality SNP loci generated by whole-genome sequencing of the 90 E. sibiricus samples as candidate markers. …”
Get full text

Modifiable factors for irritable bowel syndrome: evidence from Mendelian randomisation approach by Jinling Tang, Zhirong Yang, Shanshan Wu, Feng Sha, Tengfei Lin, Di Liu, Meiling Cao, Yiwen Jiang, Weijie Cao, Fuxiao Li

“…Subsequently, multiresponse MR (MR2) was employed to further examine these associations. Summary-level genome-wide association data were used. Modifiable factors and coexisting disorders (ie, gastrointestinal and psychiatric disorders) were identified based on evidence from cohort studies and meta-analysis. …”
Get full text

Biology-Informed inverse problems for insect pests detection using pheromone sensors by Malou, Thibault, Parisey, Nicolas, Adamczyk-Chauvat, Katarzyna, Vergu, Elisabeta, Laroche, Béatrice, Calatayud, Paul-André, Lucas, Philippe, Labarthe, Simon

Get full text

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. …”
Get full text

Study on the multidrug resistance and transmission factors of Staphylococcus aureus at the ‘animal–environment–human’ interface in the broiler feeding cycle by Fangyuan Hu, Fangyuan Hu, Yaopeng Liu, Yaopeng Liu, Lin Wang, Juan Wang, Na Liu, Yan Li, Xiaoxiao Duan, Junwei Wang, Mingzhe Lu, Junhui Liu, Zhina Qu, Keguang Han

“…Based on the concept of “One Health,” this study analyzed the multidrug resistance and transmission factors of S. aureus isolated from the “animal–environment–human” interface during one feeding cycle of commercial broilers in China by using antimicrobial susceptibility testing and whole genome sequencing (WGS) technologies. The results showed that in stage 1, the isolation rate of S. aureus was 1.32% (6/453), that of workers was 25.0% (4/16), and that of environmental samples was 0.69% (2/287), and the multidrug resistance rate was 83.33%. …”
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

Manipulation of seed coat content for increasing oil content via modulating BnaMYB52 in Brassica napus by Jiang Ye, Xiaowei Wu, Xiang Li, Yuting Zhang, Yuqing Li, Hui Zhang, Jie Chen, Yuyan Xiang, Yefan Xia, Hu Zhao, Zengdong Tan, Liang Guo, Xuan Yao

“…However, the genetic and molecular mechanisms of how seed coat development affects seed oil content (SOC) remains less studied. Through genome-wide association studies in Brassica napus accessions, we identify BnaA09.MYB52 transcription factor as a candidate gene underlying ZS11_qSCC.A09. …”
Get full text

Expression and prognostic significance of the m6A RNA methylation regulator HNRNPC in HNSCC by Yulin Zhang, Yixu Wang, Jilin Peng, Kun Zhao, Ling Li, Yuan Zhang, Ziyu Zhai, Sijie Yuan, Shichao Li, Shichao Li, Shichao Li, Fanglei Ye, Le Wang

“…BackgroundN6-methyladenosine (m6A) RNA modification is crucial for tumor development and progression; however, which m6A regulators play a pivotal role in head and neck squamous cell carcinoma (HNSCC) remains ambiguous.MethodsUtilizing the Cancer Genome Atlas (TCGA) database, the expression levels of m6A regulators in HNSCC were examined, which led to the identification of heterogeneous nuclear ribonucleoprotein C (HNRNPC) as a key gene. …”
Get full text

Prevalence of β-lactam antibiotic resistance of Escherichia coli isolated from a neonatal intensive care unit by Jian Zhou, Jingqian Zhou, Min Chen, Pan Lü, Chunming Jiang

“…Conjugation experiments were conducted to analyze the horizontal transferability of resistance genes on plasmids. Genomic DNA was extracted for whole genome sequencing, construction of plasmid physical maps, locating resistance genes, and analyzing flanking regions and the resistance gene-related sequences. …”
Get full text

Targeting HVEM-GPT2 axis: a novel approach to T cell activation and metabolic reprogramming in non-small cell lung cancer therapy by Yuanshan Yao, Chunji Chen, Bin Li, Wen Gao

“…Methods The lung cancer datasets for this study were directly downloaded from The Cancer Genome Atlas (TCGA). Single-cell data were sourced from the Tumor Immune Single-cell Hub (TISCH). …”
Get full text

Eucalyptus grandis WRKY genes provide insight into the role of arbuscular mycorrhizal symbiosis in defense against Ralstonia solanacearum by Jianlang Zhang, Xinzhu Yang, Chunyu Huo, Xinyi Fan, Qiutong Liu, Zhihong Liu, Yu Su, Zujing Chen, Zujing Chen

“…IntroductionWRKY transcription factors are essential for plant growth, health, and responses to biotic and abiotic stress.MethodsIn this study, we performed a deep in silico characterization of the WRKY gene family in the genome of Eucalyptus grandis. We also analyzed the expression profiles of these genes upon colonization by the arbuscular mycorrhizal fungus (AMF) Rhizophagus irregularis (Ri) and infection with the bacterial pathogen Ralstonia solanacearum (Rs).ResultsA total of 117 EgWRKYs were identified. …”
Get full text

Protein arginine methyltransferase 7 linked to schizophrenia through regulation of neural progenitor cell proliferation and differentiation by Ting Shen, Jing Yu, Bin Xie, Cuiping Huang, Jingjie Cui, Kefu Liu, Chunyu Liu, Chao Chen

“…Summary: Genome-wide association studies (GWASs) have identified numerous genomic loci linked to schizophrenia (SCZ), while their pathogenic mechanisms largely remain unclear. …”
Get full text

Lactate Dehydrogenase-A-Forming LDH5 Promotes Breast Cancer Progression by Fang T, Hu L, Chen T, Li F, Yang L, Liang B, Wang W, Zeng F

“…We aimed to explore the roles of LDHA and LDH5 isoenzyme activity in BC, which provides a new insight into LDHA for the treatment of BC.Methods: The expression of LDHA in BC and its relationship with clinicopathological features were obtained from various databases including The Cancer Genome Atlas (TCGA), Human Protein Atlas (HPA), Breast Cancer-Gene Expression Miner (bc-GenExMiner), TNMplot, UALCAN. …”
Get full text

Pengkontruksian Bidirected Overlap Graph untuk Perakitan Sekuens DNA by Wisnu Ananta Kusuma, Albert Adrianus

“…Tahapan ini diperlukan untuk merakit atau menyambungkan kembali fragmen-fragmen DNA (reads) yang dihasilkan oleh Next Generation Sequencing menjadi genom yang utuh. Masalah perakitan DNA ini dapat direpresentasikan sebagai masalah Shortest Common Superstring (SCS). …”
Get full text