{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,28]],"date-time":"2026-07-28T04:52:31Z","timestamp":1785214351475,"version":"3.55.0"},"reference-count":56,"publisher":"MDPI AG","issue":"6","license":[{"start":{"date-parts":[[2026,3,17]],"date-time":"2026-03-17T00:00:00Z","timestamp":1773705600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IJMS"],"abstract":"<jats:p>Dengue virus (DENV) is a mosquito-borne RNA virus that causes serious illness in humans, ranging from mild fever to severe clinical manifestations, with dengue virus type 2 (DENV-2) being the most virulent among its four serotypes. Despite extensive research, no specific antiviral therapy is currently available, making the host-directed method an appealing therapeutic approach. Evidence shows that DENV manipulates host kinase-driven phosphorylation pathways to control viral pathogenesis. Using the kinase\u2013substrate phosphomotif approach, we predicted phosphorylation sites across the DENV proteome and their potential human kinases. The predicted kinase\u2013substrate interactions were systematically integrated with DENV-2-induced human phosphoproteome datasets, protein\u2013protein interactions, and experimentally-validated viral phosphosites. The therapeutic relevance of the identified host kinases was corroborated by the impact of their inhibitors on DENV-2 infection. Among the 359 potential human kinases predicted to phosphorylate DENV-2 proteins, based on human phosphoproteome and kinase\u2013viral protein interaction analyses, CDK9 emerged as a central hub kinase. Molecular docking analyses further revealed that the host kinases CDK9, EEF2K, HASPIN, and TNNI3K form stable interactions with the viral capsid and NS5 proteins. Additionally, a conservation analysis suggested that the predicted phosphorylation sites are evolutionarily conserved across DENV-2 strains. Computational prediction tools supported the predicted kinase\u2013substrate interactions, underscoring the role of host kinases as key regulators of DENV infection, which may act as potential therapeutic targets. This study highlights the interplay between dengue viral and host proteins, providing insights into host-directed therapeutic strategies for DENV-2 infection and their potential to address the current lack of effective antiviral interventions.<\/jats:p>","DOI":"10.3390\/ijms27062718","type":"journal-article","created":{"date-parts":[[2026,3,17]],"date-time":"2026-03-17T09:35:57Z","timestamp":1773740157000},"page":"2718","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["Phosphoproteome-Entailed Kinase\u2013Substrate Landscape of Human\u2013DENV-2 Interaction"],"prefix":"10.3390","volume":"27","author":[{"given":"Ayisha A.","family":"Jabbar","sequence":"first","affiliation":[{"name":"Centre for Integrative Omics Data Science (CIODS), Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vineetha","family":"Shaji","sequence":"additional","affiliation":[{"name":"Centre for Integrative Omics Data Science (CIODS), Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"},{"name":"Centre for Systems Biology and Molecular Medicine (CSBMM), Yenepoya Research Centre, Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0006-3710-5879","authenticated-orcid":false,"given":"Akash","family":"Anil","sequence":"additional","affiliation":[{"name":"Centre for Integrative Omics Data Science (CIODS), Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mahammad","family":"Nisar","sequence":"additional","affiliation":[{"name":"Centre for Integrative Omics Data Science (CIODS), Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sowmya","family":"Soman","sequence":"additional","affiliation":[{"name":"Centre for Integrative Omics Data Science (CIODS), Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6317-3708","authenticated-orcid":false,"given":"Ganesh","family":"Prasad","sequence":"additional","affiliation":[{"name":"Department of Biochemistry, Yenepoya Medical College, Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chandran S.","family":"Abhinand","sequence":"additional","affiliation":[{"name":"Centre for Integrative Omics Data Science (CIODS), Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"},{"name":"Department of Virus Genomics, Bioinformatics, and Statistics, Institute of Advanced Virology (IAV), Bio 360 Life Sciences Park, Thonnakkal, Thiruvananthapuram 695317, Kerala, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4817-3379","authenticated-orcid":false,"given":"Prashant Kumar","family":"Modi","sequence":"additional","affiliation":[{"name":"Centre for Systems Biology and Molecular Medicine (CSBMM), Yenepoya Research Centre, Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5119-0081","authenticated-orcid":false,"given":"Madathiparambil Gopalakrishnan","family":"Madanan","sequence":"additional","affiliation":[{"name":"ICMR\u2014Regional Medical Research Centre, Port Blair 744103, Andaman and Nicobar Islands, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6732-4486","authenticated-orcid":false,"given":"Abhithaj","family":"Jayanandan","sequence":"additional","affiliation":[{"name":"Centre for Integrative Omics Data Science (CIODS), Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rajendra","family":"Pilankatta","sequence":"additional","affiliation":[{"name":"Department of Biochemistry, Central University of Kerala, Kasaragod 671316, Kerala, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2319-121X","authenticated-orcid":false,"given":"Rajesh","family":"Raju","sequence":"additional","affiliation":[{"name":"Centre for Integrative Omics Data Science (CIODS), Yenepoya (Deemed to Be University), Mangalore 575018, Karnataka, India"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2026,3,17]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","unstructured":"Nanaware, N., Banerjee, A., Bagchi, S.M., Bagchi, P., and Mukherjee, A. 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