MicroRNA-877-5p Inhibits Cell Progression by Targeting FOXM1 in Lung Cancer by Zhiguang Liu, Xinlian Wang, Liqiang Cao, Xiaowei Yin, Qian Zhang, Lan Wang

“…The downstream targets of miR-877-5p were predicted by Bioinformatics software. RT-qPCR and western blot were employed to analyze the gene levels. …”
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From Ontology to Semantic Similarity: Calculation of Ontology-Based Semantic Similarity by Mingxin Gan, Xue Dou, Rui Jiang

“…Ontologies, as abstract description systems for domain-specific knowledge composition, hence receive more and more attention in computational biology and bioinformatics. Particularly, many applications relying on domain ontologies require quantitative measures of relationships between terms in the ontologies, making it indispensable to develop computational methods for the derivation of ontology-based semantic similarity between terms. …”
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Ovarian Cancer Prognostic Prediction Model Using RNA Sequencing Data by Seokho Jeong, Lydia Mok, Se Ik Kim, TaeJin Ahn, Yong-Sang Song, Taesung Park

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Untargeted metabolomics of Aloe volatiles: Implications in pathway enrichments for improved bioactivities by Nehal Batra, Priyankar Dey

“…Through the application of appropriate bioinformatics tools, we identified distinct phytochemical classes and determined the enrichment of their corresponding biosynthetic pathways, associated the pathways with bioactivities, and also identified the inter-relation between the commonly enriched pathways. …”
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Beyond DNA: An Integrated and Functional Approach for Classifying Germline Variants in Breast Cancer Genes by T. Pesaran, R. Karam, R. Huether, S. Li, S. Farber-Katz, A. Chamberlin, H. Chong, H. LaDuca, A. Elliott

“…The accuracy of an assay is reliant on not only the technology and bioinformatics analysis utilized but also the experience and infrastructure required to correctly classify genetic variants as disease-causing. …”
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Targeted Anticancer Immunotoxins and Cytotoxic Agents with Direct Killing Moieties by Koji Kawakami, Oumi Nakajima, Ryuichi Morishita, Ryozo Nagai

“…Despite the progress of the bioinformatics approach to characterize cell-surface antigens and receptors on tumor cells, it remains difficult to generate novel cancer vaccines or neutralizing monoclonal antibody therapeutics. …”
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An Efficient Approach to Mining Maximal Contiguous Frequent Patterns from Large DNA Sequence Databases by Md. Rezaul Karim, Md. Mamunur Rashid, Byeong-Soo Jeong, Ho-Jin Choi

“…Mining interesting patterns from DNA sequences is one of the most challenging tasks in bioinformatics and computational biology. Maximal contiguous frequent patterns are preferable for expressing the function and structure of DNA sequences and hence can capture the common data characteristics among related sequences. …”
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Survey on Encoding Schemes for Genomic Data Representation and Feature Learning—From Signal Processing to Machine Learning by Ning Yu, Zhihua Li, Zeng Yu

“…Data-driven machine learning, especially deep learning technology, is becoming an important tool for handling big data issues in bioinformatics. In machine learning, DNA sequences are often converted to numerical values for data representation and feature learning in various applications. …”
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Nonlinear vibration analysis of cantilever beams: Analytical, numerical and experimental perspectives by Qamar Abbas, Rab Nawaz, Haseeb Yaqoob, Hafiz Muhammad Ali, Muhammad Musaddiq Jamil

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Validity of patient-derived xenograft mouse models for lung cancer based on exome sequencing data by Jaewon Kim, Hwanseok Rhee, Jhingook Kim, Sanghyuk Lee

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What are biopharmaceuticals? by Abhay H. Pande, Yenisetti Rajendra Prasad, J. Anakha

“…With advancements in genetic engineering, biotechnology, and bioinformatics, the development and approval rates of new biopharmaceuticals have surged, placing them at the forefront of the pharmaceutical field. …”
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Evaluation and Prediction of the HIV-1 Central Polypurine Tract Influence on Foamy Viral Vectors to Transduce Dividing and Growth-Arrested Cells by Sergey Shityakov, Carola Förster, Axel Rethwilm, Thomas Dandekar

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Understanding the Impact of Omega-3 Rich Diet on the Gut Microbiota by Blanca S. Noriega, Marcos A. Sanchez-Gonzalez, Daria Salyakina, Jonathan Coffman

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Single-Cell Transcriptome Analysis of Human Adipose-Derived Stromal Cells Identifies a Contractile Cell Subpopulation by Elize Wolmarans, Juanita Mellet, Chrisna Durandt, Fourie Joubert, Michael S. Pepper

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Complete Whole-Genome Sequence of Streptomyces sp. MUM 178J, a Potential Anti-Vibrio Agent by Ke-Yan Loo, Loh Teng-Hern Tan, Kah-Ooi Chua, Priyia Pusparajah, Kok-Gan Chan, Learn-Han Lee, Jodi Woan-Fei Law, Vengadesh Letchumanan

“…Further analysis with the bioinformatics tool, antiSMASH (antibiotics & Secondary Metabolite Analysis Shell), detected nine biosynthetic gene clusters displaying more than 70% similarity to known gene clusters, including one associated with melanin production. …”
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Explainable AI associates ECG aging effects with increased cardiovascular risk in a longitudinal population study by Philip Hempel, Antônio H. Ribeiro, Marcus Vollmer, Theresa Bender, Marcus Dörr, Dagmar Krefting, Nicolai Spicher

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Naringenin induces ferroptosis in osteosarcoma cells through the STAT3-MGST2 signaling pathway by Yingang Li, Xizhuang Bai

“…In this study, we found that naringenin significantly reduced the viability of osteosarcoma cells while increasing the accumulation of reactive oxygen species (ROS), iron overload, and the excessive expression of malondialdehyde (MDA). Bioinformatics analysis revealed that microsomal glutathione S-transferase 2 (MGST2) is highly expressed in osteosarcoma cells. …”
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Whole genome sequence of Streptomyces colonosanans strain MUSC 93JT isolated from mangrove forest in Malaysia by Hooi-Leng Ser, Jodi Woan-Fei Law, Wen-Si Tan, Wai-Fong Yin, Kok-Gan Chan

“…Analysis using a bioinformatics tool, antiSMASH predicted a total of four biosynthetic gene clusters which displayed similarity of more than 70% to known gene clusters and one of which was associated with the production of a natural protectant, ectoine. …”
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Primary Neuronal Culture and Transient Transfection by Shun- Tseng, Peng- Chen, Eric Hwang

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Schistosoma Tegument Proteins in Vaccine and Diagnosis Development: An Update by Cristina Toscano Fonseca, Gardênia Braz Figueiredo Carvalho, Clarice Carvalho Alves, Tatiane Teixeira de Melo

“…The development of a vaccine against schistosomiasis and also the availability of a more sensitive diagnosis test are important tools to help chemotherapy in controlling disease transmission. Bioinformatics tools, together with the access to parasite genome, published recently, should help generate new knowledge on parasite biology and search for new vaccines or therapeutic targets and antigens to be used in the disease diagnosis. …”
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