Publications

Anestis Gkanogiannis, Salama Rashed Obaid Almansoori, Maher Kabshawi, Mohammed Shahid, Saif Almansoori, Hifzur Rahman, Augusto Becerra Lopez-Lavalle (2025). Uncovering the Genetic Blueprint of the UAE’s National Tree: Genomic Evidence to Guide Prosopis cineraria (L.) Druce Conservation. bioRxiv.

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Cécile Triay, Alice Boizet, Christopher Fragoso, Anestis Gkanogiannis, Jean-François Rami, Mathias Lorieux (2025). Fast and accurate imputation of genotypes from noisy low-coverage sequencing data in bi-parental populations. PLOS ONE.

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Srinivasan Samineni, Sridhar Gummadi, Sumitha Thushar, Dil Nawaz Khan, Anestis Gkanogiannis, Luis Augusto Becerra López-Lavalle, Rakesh Kumar Singh (2025). Exploring Proso Millet Resilience to Abiotic Stresses: High-Yield Potential in Desert Environments of the Middle East. Agronomy.

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Natalia Pardo-Lorente, Anestis Gkanogiannis, Luca Cozzuto, Antoni Gañez-Zapater, Lorena Espinar, Ritobrata Ghose, Jacqueline Severino, Laura García-López, Rabia Gül Aydin, Laura Martin, Maria Victoria Neguembor, Evangelia Darai, Maria Pia Cosma, Laura Batlle-Morera, Julia Ponomarenko, Sara Sdelci (2024). Nuclear localization of MTHFD2 is required for correct mitosis progression. Nature Communications.

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Anestis Gkanogiannis, Hifzur Rahman, Rakesh Kumar Singh, Augusto Becerra Lopez-Lavalle (2024). Chromosome-level genome assembly and functional annotation of *Citrullus colocynthis*: unlocking genetic resources for drought-resilient crop development. Planta.

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Hifzur Rahman, Prashant Vikram, Yulan Hu, Sugandha Asthana, Abhinav Tanaji, Padmaktshni Suryanarayanan, Chris Quadros, Lovely Mehta, Mohammed Shahid, Anestis Gkanogiannis, Sumitha Thushar, Salma Balazadeh, Bernd Mueller-Roeber, Luis Augusto Becerra López-Lavalle, Tong Wei, Rakesh Kumar Singh (2024). Mining genomic regions associated with agronomic and biochemical traits in quinoa through GWAS. Scientific Reports.

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Tom Brown, Kathleen Collier, Fernando Cruz, Anestis Gkanogiannis, Sagane Joye-Dind, Yannis Nevers, Stepan Saenko, Tyler Alioto, Anthony Bretaudeau, Michael Charleston, Phuong Duy Doan, Christoph Hahn, Thomas Harrop, Katie Herron, Fredrick Kebaso, Romane Libouban, Locedi Mansueto, Shivakumara Manu, Asime Oba, David Swarbreck, Anna Syme, Fabio Zanarello, Jean-Marc Aury, Jèssica Gómez-Garrido, Alice Dennis (2024). Genome Annotation and Other Post-Assembly Workflows for the Tree of Life. BioHackrXiv.

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Laura Pascual-Reguant, Queralt Serra-Camprubí, Debayan Datta, Damiano Cianferoni, Savvas Kourtis, Antoni Gañez-Zapater, Chiara Cannatá, Lorena Espinar, Jessica Querol, Laura García-López, Sara Musa-Afaneh, Maria Guirola, Anestis Gkanogiannis, Andrea Miró Canturri, Marta Guzman, Olga Rodríguez, Andrea Herencia-Ropero, Joaquin Arribas, Violeta Serra, Luis Serrano, Tian V Tian, Sandra Peiró, Sara Sdelci (2023). Interactions between BRD4S, LOXL2, and MED1 drive cell cycle transcription in triple‐negative breast cancer. EMBO Molecular Medicine.

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Laura Perez-Fons, Tatiana Maria Ovalle, Margit Drapal, Maria Alejandra Ospina, Anestis Gkanogiannis, Adriana Bohorquez-Chaux, Luis Augusto Becerra López-Lavalle, Paul David Fraser (2023). Integrated genetic and metabolic characterization of Latin American cassava (Manihot esculenta) germplasm. Plant Physiology.

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Mauricio Peñuela, Camila Riccio-Rengifo, Jorge Finke, Camilo Rocha, Anestis Gkanogiannis, Rod A. Wing, Mathias Lorieux (2023). Prediction of crossover recombination using parental genomes. PLOS ONE 2023, 18(2), 1-21;.

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Mauricio Peñuela, Jenny Johana Gallo-Franco, Jorge Finke, Camilo Rocha, Anestis Gkanogiannis, Thaura Ghneim-Herrera, Mathias Lorieux (2022). Methylation in the CHH Context Allows to Predict Recombination in Rice. Int. J. Mol. Sci. 2022, 23(20), 12505;.

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Angélica M. Jaramillo, Santiago Sierra, Paul Chavarriaga-Aguirre, Diana Katherine Castillo, Anestis Gkanogiannis, Luis Augusto Becerra López-Lavalle, Juan Pablo Arciniegas, Tianhu Sun, Li Li, Ralf Welsch, Erick Boy, Daniel Álvarez (2022). Characterization of cassava ORANGE proteins and their capability to increase provitamin A carotenoids accumulation. PLoS ONE 17(1): e0262412..

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Anestis Gkanogiannis, Luis Augusto Becerra, et al (2021). The diversity, origin and evolution of wild and landrace varieties of M.esculenta from RADSeq data. In Preparation.

Anestis Gkanogiannis, Luis Augusto Becerra, et al (2021). Two dense genetic maps and WhiteFly infestation QTLs from RADSeq and WGS data of two F1 M.esculenta populations. In Preparation.

Mathias Lorieux, Anestis Gkanogiannis, Christopher Fragoso, Jean-François Rami (2019). NOISYmputer: genotype imputation in bi-parental populations for noisy low-coverage next-generation sequencing data. In bioRxiv 658237.

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Gkanogiannis Anestis, Dereeper Alexis, Szurek Boris, Zarate Carlos, López Camilo, Becerra López-Lavalle Luis Agusto, Ruiz Manuel (2018). The cassava genome hub. In Proceedings Plant and Animal Genome XXVI Conference, 2018 PAG, San Diego.

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Becerra López-Lavalle Luis Agusto, Villafrade Rodriguez Zapata Fausto, Ovalle Tatiana, Ruiz Manuel, Gkanogiannis Anestis, Tohmé Joe (2018). Capturing next-generation genome wide molecular markers in cassava helps to untangle the crop's genetic improvement history. In Proceedings Plant and Animal Genome XXVI Conference, 2018 PAG, San Diego.

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Villafrade Rodriguez Zapata Fausto, Ovalle Tatiana, Ruiz Manuel, Gkanogiannis Anestis, Becerra López-Lavalle Luis Augusto (2018). Population structure of wild and cultivated plants shows hierarchical organization of cassava germplasm diversity. In Proceedings Plant and Animal Genome XXVI Conference, 2018 PAG, San Diego.

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South Green members (2016). The South Green portal: a comprehensive resource for tropical and Mediterranean crop genomics. Current Plant Biology, December 2016.

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Gkanogiannis Anestis, Thomas Brüls (2016). A scalable assembly-free variable selection algorithm for biomarker discovery from metagenomes. BMC Bioinformatics 17(1):311, August 2016.

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Anestis Gkanogiannis, Theodore Kalamboukis (2010). A Perceptron-Like Linear Supervised Algorithm for Text Classification. In Advanced Data Mining and Applications (ADMA), Lecture Notes in Computer Science, 2010, Volume 6440/2010, 86-97, Chongqing, China.

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Alexandros Stougiannis, Anestis Gkanogiannis, Theodore Kalamboukis (2010). IPL at CLEF 2010. In CLEF working notes 2010, Padua, Italy.

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Gkanogiannis Anestis, Kalamboukis Theodore (2009). A modified and fast Perceptron learning rule and its use for Tag Recommendations in Social Bookmarking Systems. In ECML PKDD Discovery Challenge 2009 (DC09), International Workshop at the ECML/PKDD in Bled, Slovenia, September 7th, 2009.

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Gkanogiannis Anestis, Kalamboukis Theodore (2008). A novel supervised learning algorithm and its use for Spam Detection in Social Bookmarking Systems. In Winner of ECML PKDD Discovery Challenge 2008 (DC08), task 1: Spam Detection in Social Bookmarking Systems, Adwerp, Belgium, 2008.

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Gkanogiannis Anestis, Kalamboukis Theodore (2008). An Algorithm for Text Categorization. In The 31st Annual International ACM SIGIR Conference, 20-24 July 2008, Singapore.

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Kotsonis Vaggelis, Gkanogiannis Anestis, Kalamboukis Theodore, Eliakis Stelios (2008). A Greek-English Cross Language Medical Information Retrieval System. In Conference on Medical Imaging and Informatics, MIMI 2007.

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