Valentine Murigneux
MEng (Bioinformatics and Modelling)
Senior Bioinformatician
Data Science Collaborative Research Platform
- Over 14 years of experience working as a bioinformatician in research labs and bioinformatics support facility
- Expertise in genomics and transcriptomics data analysis including RNA-seq, CLIP-seq and genome assembly
- Expertise in long-read sequencing data analysis (Oxford Nanopore Technology, Pacific Biosciences)
- Expertise in cancer genomics (whole-genome sequencing, whole-exome sequencing, targeted sequencing, transcriptomics)
- Expertise in bioinformatics scripting using Python and R and workflow development using Nextflow
Journal Articles
Leitner, Michael, Murigneux, Valentine, Etebari, Kayvan and Asgari, Sassan (2025). Wolbachia elevates host methyltransferase expression and alters the m6A methylation landscape in Aedes aegypti mosquito cells. BMC Microbiology, 25 (1) 164. doi: 10.1186/s12866-025-03898-5
Shah, Sarah, Dougan, Katherine E., Chen, Yibi, Lo, Rosalyn, Laird, Gemma, Fortuin, Michael D. A., Rai, Subash K., Murigneux, Valentine, Bellantuono, Anthony J., Rodriguez-Lanetty, Mauricio, Bhattacharya, Debashish and Chan, Cheong Xin (2024). Massive genome reduction predates the divergence of Symbiodiniaceae dinoflagellates. The ISME Journal, 18 (1) wrae059. doi: 10.1093/ismejo/wrae059
Wong, Ho Yi, Lee, Ruby C., Chong, Sharene, Kapadia, Stuti, Freeman, Michael, Murigneux, Valentine, Brown, Susan, Soyer, H. Peter, Roy, Edwige and Khosrotehrani, Kiarash (2023). Epidermal mutation accumulation in photodamaged skin is associated with skin cancer burden and can be targeted through ablative therapy. Science Advances, 9 (19) eadf2384, 1-13. doi: 10.1126/sciadv.adf2384
Sebert, Marie, Gachet, Stéphanie, Leblanc, Thierry, Rousseau, Alix, Bluteau, Olivier, Kim, Rathana, Ben Abdelali, Raouf, Sicre de Fontbrune, Flore, Maillard, Loïc, Fedronie, Carèle, Murigneux, Valentine, Bellenger, Léa, Naouar, Naira, Quentin, Samuel, Hernandez, Lucie, Vasquez, Nadia, Da Costa, Mélanie, Prata, Pedro H, Larcher, Lise, de Tersant, Marie, Duchmann, Matthieu, Raimbault, Anna, Trimoreau, Franck, Fenneteau, Odile, Cuccuini, Wendy, Gachard, Nathalie, Auger, Nathalie, Tueur, Giulia, Blanluet, Maud ... Soulier, Jean (2023). Clonal hematopoiesis driven by chromosome 1q/MDM4 trisomy defines a canonical route toward leukemia in Fanconi anemia. Cell Stem Cell, 30 (2), 153-170.e9. doi: 10.1016/j.stem.2023.01.006
Sharma, Priyanka, Murigneux, Valentine, Haimovitz, Jasmine, Nock, Catherine J., Tian, Wei, Kharabian Masouleh, Ardashir, Topp, Bruce, Alam, Mobashwer, Furtado, Agnelo and Henry, Robert J. (2021). The genome of the endangered Macadamia jansenii displays little diversity but represents an important genetic resource for plant breeding. Plant Direct, 5 (12) e364, e364. doi: 10.1002/pld3.364
Villani, Rehan, Murigneux, Valentine, Alexis, Josue, Sim, Seen-Ling, Wagels, Michael, Saunders, Nicholas, Soyer, H. Peter, Parmentier, Laurent, Nikolaev, Sergey, Fink, J. Lynn, Roy, Edwige and Khosrotehrani, Kiarash (2021). Subtype specific analyses reveal infiltrative basal cell carcinoma are highly interactive with their environment. The Journal of Investigative Dermatology, 141 (10), 2380-2390. doi: 10.1016/j.jid.2021.02.760
Murigneux, Valentine, Roberts, Leah W., Forde, Brian M., Phan, Minh-Duy, Nhu, Nguyen Thi Khanh, Irwin, Adam D., Harris, Patrick N. A., Paterson, David L., Schembri, Mark A., Whiley, David M. and Beatson, Scott A. (2021). MicroPIPE: validating an end-to-end workflow for high-quality complete bacterial genome construction. BMC Genomics, 22 (1) 474, 474. doi: 10.1186/s12864-021-07767-z
Sharma, Priyanka, Al-Dossary, Othman, Alsubaie, Bader, Al-Mssallem, Ibrahim, Nath, Onkar, Mitter, Neena, Rodrigues Alves Margarido, Gabriel, Topp, Bruce, Murigneux, Valentine, Kharabian Masouleh, Ardashir, Furtado, Agnelo and Henry, Robert J. (2021). Improvements in the sequencing and assembly of plant genomes. Gigabyte, 2021, 1-10. doi: 10.46471/gigabyte.24
Gandhi, Maher K., Hoang, Thanh, Law, Soi C., Brosda, Sandra, O'Rourke, Kacey, Tobin, Joshua W. D., Vari, Frank, Murigneux, Valentine, Fink, J. Lynn, Gunawardana, Jay, Gould, Clare M., Oey, Harald, Bednarska, Karolina, Delecluse, Susanne, Trappe, Ralf Ulrich, de Long, Lilia Merida, Sabdia, Muhammed Bilal, Bhagat, Govind, Hapgood, Greg, Blyth, Emily, Clancy, Leighton E., Wight, Joel, Hawkes, Eliza A., Rimsza, Lisa M., Maguire, Alanna, Bojarczuk, Kamil, Chapuy, Bjoern and Keane, Colm (2021). EBV-associated primary CNS lymphoma occurring after immunosuppression is a distinct immunobiological entity. Blood, 137 (11), 1468-1477. doi: 10.1182/blood.2020008520
Kobayashi, Takumi, Lam, Pui Yeng, Jiang, Hui, Bednarska, Karolina, Gloury, Renee Elyse, Murigneux, Valentine, Tay, Joshua, Jacquelot, Nicolas, Li, Rui, Tuong, Zewen Kelvin, Leggatt, Graham, Gandhi, Maher K., Hill, Michelle M, Belz, Gabrielle T., Ngo, Shyuan, Kallies, Axel and Mattarollo, Stephen R. (2020). Increased lipid metabolism impairs NK cell function and mediates adaptation to the lymphoma environment. Blood, 136 (26), 3004-3017. doi: 10.1182/blood.2020005602
Murigneux, Valentine, Rai, Subash Kumar, Furtado, Agnelo, Bruxner, Timothy J. C., Tian, Wei, Harliwong, Ivon, Wei, Hanmin, Yang, Bicheng, Ye, Qianyu, Anderson, Ellis, Mao, Qing, Drmanac, Radoje, Wang, Ou, Peters, Brock A, Xu, Mengyang, Wu, Pei, Topp, Bruce, Coin, Lachlan J. M. and Henry, Robert J. (2020). Comparison of long-read methods for sequencing and assembly of a plant genome. GigaScience, 9 (12) giaa146. doi: 10.1093/gigascience/giaa146
Gunawardana, Jay, Lee, Justina N., Bednarska, Karolina, Murigneux, Valentine, Long, Lilia Merida, Sabdia, Muhammed B., Birch, Simone, Tobin, Joshua W. D. and Gandhi, Maher K. (2020). Genetic aberrations of NLRC5 are associated with downregulated MHC‐I antigen presentation and impaired T‐cell immunity in follicular lymphoma. eJHaem, 1 (2) jha2.116, 517-526. doi: 10.1002/jha2.116
Ganesamoorthy, Devika, Yan, Mengjia, Murigneux, Valentine, Zhou, Chenxi, Cao, Minh Duc, Duarte, Tania P. S. and Coin, Lachlan J. M. (2020). High-throughput multiplexed tandem repeat genotyping using targeted long-read sequencing. F1000Research, 9, 1084. doi: 10.12688/f1000research.25693.1
Roy, Edwige, Wong, Ho Yi, Villani, Rehan, Rouille, Thomas, Salik, Basit, Sim, Seen Ling, Murigneux, Valentine, Stark, Mitchell S., Fink, J. Lynn, Soyer, H. Peter, Walker, Graeme, Lyons, J. Guy, Saunders, Nicholas and Khosrotehrani, Kiarash (2020). Regional Variation in Epidermal Susceptibility to UV-Induced Carcinogenesis Reflects Proliferative Activity of Epidermal Progenitors. Cell Reports, 31 (9) 107702, 107702. doi: 10.1016/j.celrep.2020.107702
Tobin, Joshua W. D., Keane, Colm, Gunawardana, Jay, Mollee, Peter, Birch, Simone, Hoang, Thanh, Lee, Justina, Li, Li, Huang, Li, Murigneux, Valentine, Fink, J. Lynn, Matigian, Nicholas, Vari, Frank, Francis, Santiyagu, Kridel, Robert, Weigert, Oliver, Haebe, Sarah, Jurinovic, Vindi, Klapper, Wolfram, Steidl, Christian, Sehn, Laurie H., Law, Soi-Cheng, Wykes, Michelle N. and Gandhi, Maher K. (2019). Progression of disease within 24 months in follicular lymphoma is associated with reduced intratumoral immune infiltration. Journal of Clinical Oncology, 37 (34), 3300-3309. doi: 10.1200/JCO.18.02365
Bianchi, Joy J., Murigneux, Valentine, Bedora-Faure, Marie, Lescale, Chloé and Deriano, Ludovic (2019). Breakage-fusion-bridge events trigger complex genome rearrangements and amplifications in developmentally arrested T cell lymphomas. Cell Reports, 27 (10), 2847-2858.e4. doi: 10.1016/j.celrep.2019.05.014
Bahin, Mathieu, Noel, Benoit F., Murigneux, Valentine, Bernard, Charles, Bastianelli, Leila, Le Hir, Herve, Lebreton, Alice and Genovesio, Auguste (2019). ALFA: annotation landscape for aligned reads. BMC Genomics, 20 (1) 250, 250. doi: 10.1186/s12864-019-5624-2
Donovan, Prudence, Patel, Jatin, Dight, James, Wong, Ho Yi, Sim, Seen-Ling, Murigneux, Valentine, Francois, Mathias and Khosrotehrani, Kiarash (2019). Endovascular progenitors infiltrate melanomas and differentiate towards a variety of vascular beds promoting tumor metastasis. Nature Communications, 10 (1) 18, 18. doi: 10.1038/s41467-018-07961-w
Williams, Sarah M., An, Joon Yong, Edson, Janette, Watts, Michelle, Murigneux, Valentine, Whitehouse, Andrew J. O., Jackson, Colin J., Bellgrove, Mark A., Cristino, Alexandre S. and Claudianos, Charles (2018). An integrative analysis of non-coding regulatory DNA variations associated with autism spectrum disorder. Molecular Psychiatry, 24 (11), 1-13. doi: 10.1038/s41380-018-0049-x
Cardoso, Ana, Gil Castro, Antonio, Martins, Ana Catarina, Carriche, Guilhermina M, Murigneux, Valentine, Castro, Isabel, Cumano, Ana, Vieira, Paulo and Saraiva, Margarida (2018). The Dynamics of Interleukin-10-Afforded Protection during Dextran Sulfate Sodium-Induced Colitis. Frontiers in Immunology, 9, 1-10. doi: 10.3389/fimmu.2018.00400
Lescale, Chloe, Abramowski, Vincent, Bedora-Faure, Marie, Murigneux, Valentine, Vera, Gabriella, Roth, David B., Revy, Patrick, de Villartay, Jean-Pierre and Deriano, Ludovic (2016). RAG2 and XLF/Cernunnos interplay reveals a novel role for the RAG complex in DNA repair. Nature Communications, 7 (1) 10529, 10529.1-10529.13. doi: 10.1038/ncomms10529
Murigneux, Valentine, Dufour, Anne-Beatrice, Lobry, Jean R. and Pene, Laurent (2014). Analysis of positive control STR experiments reveals that results obtained for FGA, D3S1358, and D13S317 condition the success rate of the analysis of routine reference samples. Journal of Forensic Sciences, 59 (4), 1074-1079. doi: 10.1111/1556-4029.12360
Wang, Zhen, Murigneux, Valentine and Le Hir, Herve (2014). Transcriptome-wide modulation of splicing by the exon junction complex. Genome Biology, 15 (12) 551. doi: 10.1186/s13059-014-0551-7
Murigneux, Valentine, Sauliere, Jerome, Crollius, Hugues Roest and Le Hir, Helve (2013). Transcriptome-wide identification of RNA binding sites by CLIP-seq. Methods, 63 (1), 32-40. doi: 10.1016/j.ymeth.2013.03.022
Sauliere, Jerome, Murigneux, Valentine, Wang, Zhen, Marquenet, Emelie, Barbosa, Isabelle, Le Tonqueze, Olivier, Audic, Yann, Paillard, Luc, Crollius, Hugues Roest and Le Hir, Herve (2012). CLIP-seq of eIF4AIII reveals transcriptome-wide mapping of the human exon junction complex. Nature Structural and Molecular Biology, 19 (11), 1124-1131. doi: 10.1038/nsmb.2420
Conference Papers
Wong, H., Lee, R., Chong, S., Kapadia, S., Murigneux, V., Freeman, M., Soyer, H., Roy, E. and Khosrotehrani, K. (2023). Epidermal mutation accumulation in photodamaged skin is associated with skin cancer burden and can be targeted through ablative therapy. 1st International Societies for Investigative Dermatology Meeting, Tokyo, Japan, 12 - 13 May 2023. Oxford, United Kingdom: Elsevier.
Wong, H., Lee, R., Roy, E., Kapadia, S., Murigneux, V., Chong, S., Freeman, M. and Khosrotehrani, K. (2022). Epidermal ablation reduces keratinocyte cancer burden by lowering skin mutation load. 51st Annual ESDR Meeting, Amsterdam, Netherlands, 28 September-1 October 2022. Oxford, United Kingdom: Elsevier. doi: 10.1016/j.jid.2022.09.449
Gandhi, M.K., Hoang, T., Tobin, J.W., Law, S.C., Talaulikar, D., Jain, S., Vari, F., Murigneux, V., Fink, L., Gunawardana, J., Gould, C., Oey, H., Delecluse, S., Trappe, R.U., Merida de Long, L., Sabdia, M.B., Bhagat, G., Hapgood, G., Blyth, E., Clancy, L., Casey, J., Wight, J., Hawkes, E. and Keane, C. (2019). EBV+ CNS lymphomas have a distinctive tumor microenvironment and genetic profile, which is amenable to combination 3rd party EBV-specific CTL and Ibrutinib therapy. 15th International Conference on Malignant Lymphoma, Lugano, Switzerland, 18–22 June 2019. Oxford, United Kingdom: John Wiley & Sons. doi: 10.1002/hon.91_2629
Gould, Clare, Keane, Colm, Murigneux, Valentine, Oey, Harald, Ellis, Jonathan, Birch, Simone, Gunawardana, Jay, Talaulikar, Dipti, Hertzberg, Mark S., Jones, Kimberley and Gandhi, Maher K. (2019). B2M Gene Expression Reflects an Immunologically Active Tumor Microenvironment in DLBCL. ASH Annual Meeting, Orlando, FL, United States, 7-10 December 2019. Washington, DC, United States: American Society of Hematology. doi: 10.1182/blood-2019-126537
Wong, H., Roy, E., Kapadia, S., Murigneux, V., Chong, S. and Khosrotehrani, K. (2019). Laser dermabrasion: a potential treatment for non-melanoma skin cancers. 49th Annual Meeting of the European Society for Dermatological Research (ESDR), Bordeaux, France, 18-21 September, 2019. Oxford, United Kingdom: Elsevier. doi: 10.1016/j.jid.2019.07.567
Villani, R., Roy, E., Murigneux, V., Sim, S., Malapitan, C., Galbraith, J., Kapadia, S., Fink, L. and Khosrotehrani, K. (2019). Cancer associated fibroblast profiling reveals endothelin signalling as a novel mediator of niche to tumour cross-talk in Basal Cell Carcinoma. 49th Annual Meeting of the European Society for Dermatological Research (ESDR), Bordeaux, France, 18-21 September 2019. New York, NY United States: Elsevier. doi: 10.1016/j.jid.2019.07.507
Tobin, J., Keane, C., Mollee, P., Birch, S., Gould, C., Gunawardana, J., Hoang, T., Savarimuthu, S., Ma, T., Li, L., Murigneux, V. , Fink, L., Matigian, N. and Gandhi, M. K. (2018). The Tumour Microenvironment as an Independent Prognostic Biomarker in Follicular Lymphoma. RACP Congress 2018, Disruption for Healthy Futures, Sydney, NSW Australia, 14–16 May 2018. Hoboken, NJ United States: Wiley. doi: 10.1111/imj.2_13826
Tobin, Joshua W. D., Keane, Colm, Mollee, Peter, Birch, Simone, Gould, Clare, Gunawardana, Jay, Hoang, Thanh, Ma, Ti, Abro, Emad Uddin, Shanavas, Mohamed, Yoo, Hyung, Li, Li, Scuffham, Paul, Murigneux, Valentine, Fink, Lynn, Matigian, Nicholas, Vari, Frank, Francis, Santiyagu and Gandhi, Maher K. (2017). The tumor microenvironment is independently prognostic of conventional and clinicogenetic risk models in follicular lymphoma. 59th Annual Meeting of the American-Society-of-Hematology (ASH), Atlanta, GA United States, 9-12 December 2017. Washington, DC United States: American Society of Hematology. doi: 10.1182/blood.V130.Suppl_1.728.728
Gandhi, Maher K., Keane, Colm, Tobin, Joshua W. D., Talaulikar, Dipti, Jain, Sanjiv, Vari, Frank, Kruze, Lutz, Murigneux, Valentine, Fink, Lynn, Gunawardana, Jithendra, Gould, Clare, Oey, Harold, Fink, Susanne, Trappe, Ralf Ulrich, Mathews, Marina, Francis, Santiyagu and Hoang, Thanh (2017). The impact of EBV upon the tumor microenvironment and mutational profile of primary CNS lymphoma in PTLD. 59th Annual Meeting of the American-Society-of-Hematology (ASH), Atlanta, GA, United States, 9-12 December 2017. Washington, DC, United States: American Society of Hematology.
Roy, E., Wong, H., Murigneux, V., Fink, L. and Khosrotehrani, K. (2017). Regional variation in epidermal susceptibility to ultraviolet induced carcinogenesis reflects proliferative activity of epidermal progenitors. 47th Annual Meeting of the European-Society-for-Dermatological-Research (ESDR), Salzburg Austria, 27-30 September 2017. London, United Kingdom: Nature Publishing Group. doi: 10.1016/j.jid.2017.07.721