Search Results - "Francesco Marass"

Non-invasive analysis of acquired resistance to cancer therapy by sequencing of plasma DNA by Murtaza, Muhammed, Dawson, Sarah-Jane, Tsui, Dana W. Y., Gale, Davina, Forshew, Tim, Piskorz, Anna M., Parkinson, Christine, Chin, Suet-Feung, Kingsbury, Zoya, Wong, Alvin S. C., Marass, Francesco, Humphray, Sean, Hadfield, James, Bentley, David, Chin, Tan Min, Brenton, James D., Caldas, Carlos, Rosenfeld, Nitzan

“…A proof of principle study shows that by exome sequencing of cell-free circulating DNA from cancer patient plasma samples, the genomic evolution of metastatic…”
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Detection of cell‐free DNA fragmentation and copy number alterations in cerebrospinal fluid from glioma patients by Mouliere, Florent, Mair, Richard, Chandrananda, Dineika, Marass, Francesco, Smith, Christopher G, Su, Jing, Morris, James, Watts, Colin, Brindle, Kevin M, Rosenfeld, Nitzan

“…Glioma is difficult to detect or characterize using current liquid biopsy approaches. Detection of cell‐free tumor DNA (cftDNA) in cerebrospinal fluid (CSF)…”
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Measurement of Plasma Cell-Free Mitochondrial Tumor DNA Improves Detection of Glioblastoma in Patient-Derived Orthotopic Xenograft Models by Mair, Richard, Mouliere, Florent, Smith, Christopher G, Chandrananda, Dineika, Gale, Davina, Marass, Francesco, Tsui, Dana W Y, Massie, Charles E, Wright, Alan J, Watts, Colin, Rosenfeld, Nitzan, Brindle, Kevin M

“…The factors responsible for the low detection rate of cell-free tumor DNA (ctDNA) in the plasma of patients with glioblastoma (GBM) are currently unknown. In…”
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Optimized p53 immunohistochemistry is an accurate predictor of TP53 mutation in ovarian carcinoma by Köbel, Martin, Piskorz, Anna M, Lee, Sandra, Lui, Shuhong, LePage, Cecile, Marass, Francesco, Rosenfeld, Nitzan, Mes Masson, Anne‐Marie, Brenton, James D

“…TP53 mutations are ubiquitous in high‐grade serous ovarian carcinomas (HGSOC), and the presence of TP53 mutation discriminates between high and low‐grade…”
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Fragment Size Analysis May Distinguish Clonal Hematopoiesis from Tumor-Derived Mutations in Cell-Free DNA by Marass, Francesco, Stephens, Dennis, Ptashkin, Ryan, Zehir, Ahmet, Berger, Michael F, Solit, David B, Diaz, Luis A, Tsui, Dana W Y

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Predicting tumour content of liquid biopsies from cell-free DNA by Cardner, Mathias, Marass, Francesco, Gedvilaite, Erika, Yang, Julie L, Tsui, Dana W Y, Beerenwinkel, Niko

“…Liquid biopsy is a minimally-invasive method of sampling bodily fluids, capable of revealing evidence of cancer. The distribution of cell-free DNA (cfDNA)…”
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Clinical and pathological impact of VHL, PBRM1, BAP1, SETD2, KDM6A, and JARID1c in clear cell renal cell carcinoma by Gossage, Lucy, Murtaza, Muhammed, Slatter, Andrew F., Lichtenstein, Conrad P., Warren, Anne, Haynes, Beverley, Marass, Francesco, Roberts, Ian, Shanahan, Susan J., Claas, Andreas, Dunham, Andrew, May, Andrew P., Rosenfeld, Nitzan, Forshew, Tim, Eisen, Tim

“…VHL is mutated in the majority of patients with clear cell renal cell carcinoma (ccRCC), with conflicting clinical relevance. Recent studies have identified…”
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Dynamics of multiple resistance mechanisms in plasma DNA during EGFR‐targeted therapies in non‐small cell lung cancer by Tsui, Dana Wai Yi, Murtaza, Muhammed, Wong, Alvin Seng Cheong, Rueda, Oscar M, Smith, Christopher G, Chandrananda, Dineika, Soo, Ross A, Lim, Hong Liang, Goh, Boon Cher, Caldas, Carlos, Forshew, Tim, Gale, Davina, Liu, Wei, Morris, James, Marass, Francesco, Eisen, Tim, Chin, Tan Min, Rosenfeld, Nitzan

“…Tumour heterogeneity leads to the development of multiple resistance mechanisms during targeted therapies. Identifying the dominant driver(s) is critical for…”
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Cell‐free DNA profiling in retinoblastoma patients with advanced intraocular disease: An MSKCC experience by Kothari, Prachi, Marass, Francesco, Yang, Julie L., Stewart, Caitlin M., Stephens, Dennis, Patel, Juber, Hasan, Maysun, Jing, Xiaohong, Meng, Fanli, Enriquez, Jeanette, Huberman, Kety, Viale, Agnes, Francis, Jasmine H., Berger, Michael F., Shukla, Neerav, Abramson, David H., Dunkel, Ira J., Tsui, Dana W.Y.

“…Purpose The enucleation rate for retinoblastoma has dropped from over 95% to under 10% in the past 10 years as a result of improvements in therapy. This…”
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Kinome capture sequencing of high-grade serous ovarian carcinoma reveals novel mutations in the JAK3 gene by Mittempergher, Lorenza, Piskorz, Anna M, Bosma, Astrid J, Michaut, Magali, Wisman, G Bea A, Kluin, Roelof J C, Nieuwland, Marja, Brugman, Wim, van der Ven, Kevin J W, Marass, Francesco, Morris, James, Rosenfeld, Nitzan, Jimenez-Linan, Mercedes, de Jong, Steven, van der Zee, Ate G J, Brenton, James D, Bernards, René

“…High-grade serous ovarian carcinoma (HGSOC) remains the deadliest form of epithelial ovarian cancer and despite major efforts little improvement in overall…”
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CVE: an R package for interactive variant prioritisation in precision oncology by Mock, Andreas, Murphy, Suzanne, Morris, James, Marass, Francesco, Rosenfeld, Nitzan, Massie, Charlie

“…An increasing number of precision oncology programmes are being launched world-wide. To support this development, we present the Cancer Variant Explorer (CVE),…”
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Proof-of-concept evaluation of next-generation sequencing-based liquid biopsy for non-invasive cancer detection in cats by Ruiz-Perez, Carlos A, Nakashe, Prachi, Marshall, Maggie A, Marass, Francesco, Tang, Tuong, McLennan, Lisa M, Kroll, Marissa, Flesner, Brian K, Gray, Suzanne, Rafalko, Jill M, Grosu, Daniel S, Hicks, Susan C, Tynan, John A, Tsui, Dana W Y, Flory, Andi, Kruglyak, Kristina M

“…This proof-of-concept evaluation demonstrates that next-generation sequencing-based liquid biopsy can detect genomic alterations in the blood of cats with…”
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Individualised monitoring of patients with metastatic melanoma using plasma DNA by Wan, Jonathan, BSc, Murphy, Suzanne, MD, Gale, Davina, BSc, Morris, James, PhD, Mouliere, Florent C, PhD, Marass, Francesco, PhD, Heider, Katrin, BSc, Chandrananda, Dineika, PhD, Bignell, Graham, PhD, Parkinson, Christine, MD, Durrani, Amer, MD, McDermott, Ultan, MD, Massie, Charles, PhD, Corrie, Pippa, MD, Rosenfeld, Nitzan, PhD

“…Abstract Background Circulating tumour DNA (ctDNA) is released by cancer cells into the bloodstream, which can be analysed via liquid biopsy. Analysis of…”
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A 44K microarray dataset of the changing transcriptome in developing Atlantic salmon (Salmo salar L.) by Jantzen, Stuart G, Sanderson, Dan S, von Schalburg, Kris R, Yasuike, Motoshige, Marass, Francesco, Koop, Ben F

“…Atlantic salmon (Salmo salar L.) is an environmentally and economically important organism and its gene content is reasonably well characterized. From a…”
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Sequence Searcher: A Java tool to perform regular expression and fuzzy searches of multiple DNA and protein sequences by Marass, Francesco, Upton, Chris

“…Many sequence-searching tools have limiting factors for their use. For example, they may be platform specific, enforce restrictive size limits and sequences to…”
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KISSa: a strategy to build multiple sequence alignments from pairwise comparisons of very closely related sequences by Marass, Francesco, Upton, Chris

“…The volume of viral genomic sequence data continues to increase rapidly. This is especially true for the smaller RNA viruses, which are relatively easy to…”
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JaPaFi: A Novel Program for the Identification of Highly Conserved DNA Sequences by Sadeque, Aliya, Barsky, Marina, Marass, Francesco, Kruczkiewicz, Peter, Upton, Chris

“…We describe the use of Java Pattern Finder (JaPaFi) to identify short (<100 nt) highly conserved sequences in a series of poxvirus genomes. The algorithm…”
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Enhanced detection of circulating tumor DNA by fragment size analysis by Mouliere, Florent, Chandrananda, Dineika, Piskorz, Anna M, Moore, Elizabeth K, Morris, James, Ahlborn, Lise Barlebo, Mair, Richard, Goranova, Teodora, Marass, Francesco, Heider, Katrin, Wan, Jonathan C M, Supernat, Anna, Hudecova, Irena, Gounaris, Ioannis, Ros, Susana, Jimenez-Linan, Mercedes, Garcia-Corbacho, Javier, Patel, Keval, Østrup, Olga, Murphy, Suzanne, Eldridge, Matthew D, Gale, Davina, Stewart, Grant D, Burge, Johanna, Cooper, Wendy N, van der Heijden, Michiel S, Massie, Charles E, Watts, Colin, Corrie, Pippa, Pacey, Simon, Brindle, Kevin M, Baird, Richard D, Mau-Sørensen, Morten, Parkinson, Christine A, Smith, Christopher G, Brenton, James D, Rosenfeld, Nitzan

“…Existing methods to improve detection of circulating tumor DNA (ctDNA) have focused on genomic alterations but have rarely considered the biological properties…”
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Multifocal clonal evolution characterized using circulating tumour DNA in a case of metastatic breast cancer by Murtaza, Muhammed, Dawson, Sarah-Jane, Pogrebniak, Katherine, Rueda, Oscar M., Provenzano, Elena, Grant, John, Chin, Suet-Feung, Tsui, Dana W. Y., Marass, Francesco, Gale, Davina, Ali, H. Raza, Shah, Pankti, Contente-Cuomo, Tania, Farahani, Hossein, Shumansky, Karey, Kingsbury, Zoya, Humphray, Sean, Bentley, David, Shah, Sohrab P., Wallis, Matthew, Rosenfeld, Nitzan, Caldas, Carlos

“…Circulating tumour DNA analysis can be used to track tumour burden and analyse cancer genomes non-invasively but the extent to which it represents metastatic…”
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BnpC: Bayesian non-parametric clustering of single-cell mutation profiles by Borgsmüller, Nico, Bonet, Jose, Marass, Francesco, Gonzalez-Perez, Abel, Lopez-Bigas, Nuria, Beerenwinkel, Niko

“…Abstract Motivation The high resolution of single-cell DNA sequencing (scDNA-seq) offers great potential to resolve intratumor heterogeneity (ITH) by…”
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