Association between Chromosome 4 and mercury accumulation in muscle of the three‐spined stickleback (Gasterosteus aculeatus) by Federico C. F. Calboli, Vyshal Delahaut, Io Deflem, Pascal I. Hablützel, Bart Hellemans, Anna Kordas, Joost A. M. Raeymaekers, Lieven Bervoets, Gudrun De Boeck, Filip A. M. Volckaert

“…Based on a linear mixed model analysis, the GWAS yielded multiple hits with a single top hit on Chromosome 4, with eight more SNPs suggestive of association. …”
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Comparative Proteomics and Genome-Wide Druggability Analyses Prioritized Promising Therapeutic Targets against Drug-Resistant <i>Leishmania tropica</i> by Sara Aiman, A. Khuzaim Alzahrani, Fawad Ali, Abida, Mohd. Imran, Mehnaz Kamal, Muhammad Usman, Hamdy Khamees Thabet, Chunhua Li, Asifullah Khan

“…The pharmacophore-based virtual screening and ADME profiling predicted MolPort-000-730-162 and MolPort-020-232-354 as the top hit drug-like compounds from the Pharmit resource to inhibit <i>L. tropica</i> UDPase and PCNA, respectively. …”
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Zebrafish drug screening identifies Erlotinib as an inhibitor of Wnt/β-catenin signaling and self-renewal in T-cell acute lymphoblastic leukemia by Majd A. Al-Hamaly, Anna H. Cox, Meghan G. Haney, Wen Zhang, Emma C. Arvin, Shilpa Sampathi, Mary Wimsett, Chunming Liu, Jessica S. Blackburn

“…Utilizing zebrafish expressing a Wnt reporter, we identified several drugs that suppressed Wnt signaling without compromising zebrafish development. The efficacy of the top hit, Erlotinib, extended to human cells, where it blocked Wnt/β-catenin signaling downstream of the destruction complex. …”
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Genome-wide association study to identify the genetic determinants of otitis media susceptibility in childhood. by Marie S Rye, Nicole M Warrington, Elizabeth S H Scaman, Shyan Vijayasekaran, Harvey L Coates, Denise Anderson, Craig E Pennell, Jenefer M Blackwell, Sarra E Jamieson

“…In a gene-based analysis in VEGAS, BPIFA3 (P(Gene) = 2 × 10(-5)) and BPIFA1 (P(Gene) = 1.07 × 10(-4)) in the BPIFA gene cluster on chromosome 20q11.21 were the top hits. In all, 32 genomic regions show evidence of association (P(adj-PCA)<10(-5)) in this GWAS, with pathway analysis showing a connection between top candidates and the TGFβ pathway. …”
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Robust species taxonomy assignment algorithm for 16S rRNA NGS reads: application to oral carcinoma samples by Nezar Noor Al-Hebshi, Akram Thabet Nasher, Ali Mohamed Idris, Tsute Chen

“…High-quality, well-aligned, and non-chimeric reads ≥350 bp were classified using a novel, multi-stage algorithm that involves matching reads to reference sequences in revised versions of the Human Oral Microbiome Database (HOMD), HOMD extended (HOMDEXT), and Greengene Gold (GGG) at alignment coverage and percentage identity ≥98%, followed by assignment to species level based on top hit reference sequences. Priority was given to hits in HOMD, then HOMDEXT and finally GGG. …”
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Development of an Antibiotic Resistance Breaker to Resensitize Drug-Resistant Staphylococcus aureus: In Silico and In Vitro Approach by Gopalakrishnan Thamilselvan, Hema Bhagavathi Sarveswari, Sahana Vasudevan, Alex Stanley, Karthi Shanmugam, Karthi Shanmugam, Pothiappan Vairaprakash, Adline Princy Solomon

“…The 42 compounds were docked with modeled NorA protein, and key molecular interactions of the prominent compounds were assessed. The top hit compounds were further analyzed for their drug-like properties using ADMET studies. …”
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Joining Illumina paired-end reads for classifying phylogenetic marker sequences by Tsunglin Liu, Chen-Yu Chen, An Chen-Deng, Yi-Lin Chen, Jiu-Yao Wang, Yung-I Hou, Min-Ching Lin

“…For most classifiers, read joining ameliorated the impact of sequencing errors and improved the accuracy of taxonomy predictions. For alignment-based top-hit classifiers, rearranging the reference sequences is recommended to avoid improper alignments of joined reads. …”
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Functional Genomic Screening in Human Pluripotent Stem Cells Reveals New Roadblocks in Early Pancreatic Endoderm Formation by Jana Krüger, Markus Breunig, Lino Pascal Pasquini, Mareen Morawe, Alexander Groß, Frank Arnold, Ronan Russell, Thomas Seufferlein, Ninel Azoitei, Hans A. Kestler, Cécile Julier, Sandra Heller, Meike Hohwieler, Alexander Kleger

“…Deep sequencing followed by abundancy ranking pinpointed six top hit genes potentially associated with either improved or impaired endodermal differentiation, which were selected for functional validation in CRISPR-Cas9 mediated knockout (KO) lines. …”
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Cannabis sativa L. chemical compositions as potential plasmodium falciparum dihydrofolate reductase-thymidinesynthase enzyme inhibitors: An in silico study for drug development by Quan Pham Minh, Huong Le Thi Thuy, Toan Tran Quoc, Hung Nguyen Phi, Nam Pham Hai, Kiet Ngo Tuan, Ha Nguyen Xuan, Le Dang Thi Thanh, An Ton Nu Thuy, Show Pau Loke, Thi Hai Ha Pham

“…Compound 9 is considered as the top “hit” with docking energy far more exceeding those of the standard compounds. …”
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Variants in immune-related genes and genital HPV 16 persistence in men by Bigyan Mainali, Matthew B. Schabath, Staci L. Sudenga, Yuanfan Ye, Howard W. Wiener, Luisa L. Villa, Anna R. Giuliano, Sadeep Shrestha

“…Some of the genes flanking the top hit SNPs are consistent with previous findings in both HPV related and non-related cancers but further genetic studies in larger cohorts are warranted to confirm these and identify novel major susceptibility genes involved in the pathogenesis of genital HPV persistence in men. …”
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Virtual Screening of FDA-Approved Drugs against LasR of <i>Pseudomonas aeruginosa</i> for Antibiofilm Potential by Suhaib Sadiq, Nosheen Fatima Rana, Muhammad Ammar Zahid, Muhammad Kazim Zargaham, Tahreem Tanweer, Amna Batool, Ayesha Naeem, Afrah Nawaz, Rizwan-ur-Rehman, Zahid Muneer, Abdul Rauf Siddiqi

“…Then, 50 ns simulations of top hit compounds were performed to elucidate the stability of their binding conformations with the LasR-LBD. …”
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Exploring the natural products chemical space to abrogate the F3L-dsRNA interface of monkeypox virus to enhance the immune responses using molecular screening and free energy calcu... by Muhammad Suleman, Muhammad Suleman, Tanveer Ahmad, Khadim shah, Norah A. Albekairi, Abdulrahman Alshammari, Abbas Khan, Abbas Khan, Dong-Qing Wei, Hadi M. Yassine, Hadi M. Yassine, Sergio Crovella

“…The dissociation constant (KD) analysis revealed a stronger binding affinity of the top hits 1-4 (−5.34, −5.32, −5.29, and −5.36 kcal/mol) with the F3L in the MPXV. …”
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Functional genomics identifies N-acetyllactosamine extension of complex N-glycans as a mechanism to evade lysis by natural killer cells by Xiaoxuan Zhuang, James Woods, Yanlong Ji, Sebastian Scheich, Fei Mo, Sumati Rajagopalan, Zana A. Coulibaly, Matthias Voss, Henning Urlaub, Louis M. Staudt, Kuan-Ting Pan, Eric O. Long

“…SPPL3, a peptidase that cleaves glycosyltransferases in the Golgi, emerges as a top hit facilitating evasion from NK cytotoxicity. …”
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Genome-Wide Association Study of Serum 25-Hydroxyvitamin D in US Women by Katie M. O'Brien, Dale P. Sandler, Min Shi, Quaker E. Harmon, Jack A. Taylor, Clarice R. Weinberg

“…These were located in or near GC, the vitamin D binding protein, or CYP2R1, a cytochrome P450 enzyme that hydroxylates vitamin D to form 25(OH)D. The top hit was rs4588, a missense GC polymorphism associated with a 3.5 ng/mL decrease in 25(OH)D per copy of the minor allele (95% confidence interval [CI]: −4.1, −3.0; p = 4.5 × 10−38). …”
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Bacopa monnieri: A promising herbal approach for neurodegenerative disease treatment supported by in silico and in vitro research by Shehla Shoukat, Muhammad Amir Zia, Muhammad Uzair, Kotb A. Attia, Asmaa M. Abushady, Sajid Fiaz, Shaukat Ali, Seung Hwan Yang, Ghulam Muhammad Ali

“…Virtual screening was performed through molecular docking and molecular dynamic simulation resulting in four top hit compounds including quercetin, apigenin, wogonin, and bacopaside X (novel lead compound for acetylcholinesterase inhibitor) with least binding score. …”
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Quantitative and Qualitative Proteome Characteristics Extracted from In-Depth Integrated Genomics and Proteomics Analysis by Teck Yew Low, Sebastiaan van Heesch, Henk van den Toorn, Piero Giansanti, Alba Cristobal, Pim Toonen, Sebastian Schafer, Norbert Hübner, Bas van Breukelen, Shabaz Mohammed, Edwin Cuppen, Albert J.R. Heck, Victor Guryev

“…Our multilevel analysis identified a genomic variant in the promoter of the most differentially expressed gene Cyp17a1, a previously reported top hit in genome-wide association studies for human hypertension, as a potential contributor to the hypertension phenotype in SHR rats. …”
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Carica Papaya Reduces High Fat Diet and Streptozotocin-Induced Development of Inflammation in Adipocyte via IL-1β/IL-6/TNF-α Mediated Signaling Mechanisms in Type-2 Diabetic Rats by Jeane Rebecca Roy, Coimbatore Sadagopan Janaki, Selvaraj Jayaraman, Vijayalakshmi Periyasamy, Thotakura Balaji, Madhavan Vijayamalathi, Vishnu Priya Veeraraghavan, Kalaiselvi Krishnamoorthy, Monisha Prasad

“…Molecular docking and dynamics simulation studies revealed that caffeic acid, transferulic acid and quercetin had the top hit rates against IKKβ, TNF-α, IL-6, IL-1β, and mTOR. …”
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Genome-wide association study identifies loci and candidate genes for non-idiopathic pulmonary hypertension in Eastern Chinese Han population by Caiyong Yin, Kai Li, Yanfang Yu, Huijie Huang, Youjia Yu, Zhongqun Wang, Jinchuan Yan, Yan Pu, Zheng Li, Ding Li, Peng Chen, Feng Chen

“…Results The data revealed that 2 SNPs were associated with PH overall susceptibility at p < 3×10− 4 after Bonferroni correction. The top hit was rs6557421 (p = 4.5×10− 9), located within Nox3 gene on chromosome 6. …”
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Lactate dehydrogenase A regulates tumor-macrophage symbiosis to promote glioblastoma progression by Fatima Khan, Yiyun Lin, Heba Ali, Lizhi Pang, Madeline Dunterman, Wen-Hao Hsu, Katie Frenis, R. Grant Rowe, Derek A. Wainwright, Kathleen McCortney, Leah K. Billingham, Jason Miska, Craig Horbinski, Maciej S. Lesniak, Peiwen Chen

“…By screening a cluster of metabolic small-molecule compounds, we show that inhibiting glioblastoma cell glycolysis impairs macrophage migration and lactate dehydrogenase inhibitor stiripentol emerges as the top hit. Combined profiling and functional studies demonstrate that lactate dehydrogenase A (LDHA)-directed extracellular signal-regulated kinase (ERK) pathway activates yes-associated protein 1 (YAP1)/ signal transducer and activator of transcription 3 (STAT3) transcriptional co-activators in glioblastoma cells to upregulate C-C motif chemokine ligand 2 (CCL2) and CCL7, which recruit macrophages into the tumor microenvironment. …”
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Identification of NS2B-NS3 Protease Inhibitors for Therapeutic Application in ZIKV Infection: A Pharmacophore-Based High-Throughput Virtual Screening and MD Simulations Approaches by Hafiz Muzzammel Rehman, Muhammad Sajjad, Muhammad Akhtar Ali, Roquyya Gul, Muhammad Irfan, Muhammad Naveed, Munir Ahmad Bhinder, Muhammad Usman Ghani, Nadia Hussain, Amira S. A. Said, Amal H. I. Al Haddad, Mahjabeen Saleem

“…Subsequently, the predicted model is further subjected to the high-throughput virtual screening to reveal top hit molecules from the various small molecule databases. …”
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