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Detection of cell‐free DNA fragmentation and copy number alterations in cerebrospinal fluid from glioma patients.
Published in:
EMBO Molecular Medicine, 2018, v. 10, n. 12, p. N.PAG, doi. 10.15252/emmm.201809323
By:
- Mouliere, Florent;
- Mair, Richard;
- Chandrananda, Dineika;
- Marass, Francesco;
- Smith, Christopher G;
- Su, Jing;
- Morris, James;
- Watts, Colin;
- Brindle, Kevin M;
- Rosenfeld, Nitzan
Publication type:
Article
Dynamics of multiple resistance mechanisms in plasma DNA during EGFR‐targeted therapies in non‐small cell lung cancer.
Published in:
EMBO Molecular Medicine, 2018, v. 10, n. 6, p. 1, doi. 10.15252/emmm.201707945
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
Publication type:
Article
Predicting tumour content of liquid biopsies from cell-free DNA.
Published in:
BMC Bioinformatics, 2023, v. 24, n. 1, p. 1, doi. 10.1186/s12859-023-05478-8
By:
- Cardner, Mathias;
- Marass, Francesco;
- Gedvilaite, Erika;
- Yang, Julie L.;
- Tsui, Dana W. Y.;
- Beerenwinkel, Niko
Publication type:
Article
Multiparametric Circulating Tumor Cell Analysis to Select Targeted Therapies for Breast Cancer Patients.
Published in:
Cancers, 2021, v. 13, n. 23, p. 6004, doi. 10.3390/cancers13236004
By:
- Franken, André;
- Behrens, Bianca;
- Reinhardt, Florian;
- Yang, Liwen;
- Rivandi, Mahdi;
- Marass, Francesco;
- Jaeger, Bernadette;
- Krawczyk, Natalia;
- Cieslik, Jan-Philipp;
- Honisch, Ellen;
- Asperger, Hannah;
- Jeannot, Emmanuelle;
- Proudhon, Charlotte;
- Beerenwinkel, Niko;
- Schölermann, Natali;
- Esposito, Irene;
- Dietzel, Frederic;
- Stoecklein, Nikolas H.;
- Niederacher, Dieter;
- Fehm, Tanja
Publication type:
Article
Proof-of-concept evaluation of next-generation sequencing-based liquid biopsy for non-invasive cancer detection in cats.
Published in:
Frontiers in Veterinary Science, 2024, p. 1, doi. 10.3389/fvets.2024.1394686
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.
Publication type:
Article
Cell‐free DNA profiling in retinoblastoma patients with advanced intraocular disease: An MSKCC experience.
Published in:
Cancer Medicine, 2020, v. 9, n. 17, p. 6093, doi. 10.1002/cam4.3144
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.
Publication type:
Article
A 44K microarray dataset of the changing transcriptome in developing Atlantic salmon (Salmo salar L.).
Published in:
BMC Research Notes, 2011, v. 4, n. 1, p. 88, doi. 10.1186/1756-0500-4-88
By:
- Jantzen, Stuart G.;
- Sanderson, Dan S.;
- von Schalburg, Kris R.;
- Yasuike, Motoshige;
- Marass, Francesco;
- Koop, Ben F.
Publication type:
Article
KISSa: a strategy to build multiple sequence alignments from pairwise comparisons of very closely related sequences.
Published in:
BMC Research Notes, 2009, v. 2, p. 1, doi. 10.1186/1756-0500-2-91
By:
- Marass, Francesco;
- Upton, Chris
Publication type:
Article
Kinome capture sequencing of high-grade serous ovarian carcinoma reveals novel mutations in the JAK3 gene.
Published in:
PLoS ONE, 2020, v. 15, n. 7, p. 1, doi. 10.1371/journal.pone.0235766
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
Publication type:
Article
CVE: an R package for interactive variant prioritisation in precision oncology.
Published in:
BMC Medical Genomics, 2017, v. 10, p. 1, doi. 10.1186/s12920-017-0261-6
By:
- Mock, Andreas;
- Murphy, Suzanne;
- Morris, James;
- Marass, Francesco;
- Rosenfeld, Nitzan;
- Massie, Charlie
Publication type:
Article
Fragment Size Analysis May Distinguish Clonal Hematopoiesis from Tumor-Derived Mutations in Cell-Free DNA.
Published in:
Clinical Chemistry, 2020, v. 66, n. 4, p. 616, doi. 10.1093/clinchem/hvaa026
By:
- Marass, Francesco;
- Stephens, Dennis;
- Ptashkin, Ryan;
- Zehir, Ahmet;
- Berger, Michael F.;
- Solit, David B.;
- Diaz Jr., Luis A.;
- Tsui, Dana W. Y.
Publication type:
Article
Multifocal clonal evolution characterized using circulating tumour DNA in a case of metastatic breast cancer.
Published in:
Nature Communications, 2015, v. 6, n. 11, p. 8760, doi. 10.1038/ncomms9760
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
Publication type:
Article
Tracking the origins and drivers of subclonal metastatic expansion in prostate cancer.
Published in:
Nature Communications, 2015, v. 6, n. 4, p. 6605, doi. 10.1038/ncomms7605
By:
- Hong, Matthew K.H.;
- Macintyre, Geoff;
- Wedge, David C.;
- Van Loo, Peter;
- Patel, Keval;
- Lunke, Sebastian;
- Alexandrov, Ludmil B.;
- Sloggett, Clare;
- Cmero, Marek;
- Marass, Francesco;
- Tsui, Dana;
- Mangiola, Stefano;
- Lonie, Andrew;
- Naeem, Haroon;
- Sapre, Nikhil;
- Phal, Pramit M.;
- Kurganovs, Natalie;
- Chin, Xiaowen;
- Kerger, Michael;
- Warren, Anne Y.
Publication type:
Article
ctDNA monitoring using patient-specific sequencing and integration of variant reads.
Published in:
Science Translational Medicine, 2020, v. 12, n. 548, p. 1, doi. 10.1126/scitranslmed.aaz8084
By:
- Wan, Jonathan C. M.;
- Heider, Katrin;
- Gale, Davina;
- Murphy, Suzanne;
- Fisher, Eyal;
- Mouliere, Florent;
- Ruiz-Valdepenas, Andrea;
- Santonja, Angela;
- Morris, James;
- Chandrananda, Dineika;
- Marshall, Andrea;
- Gill, Andrew B.;
- Chan, Pui Ying;
- Barker, Emily;
- Young, Gemma;
- Cooper, Wendy N.;
- Hudecova, Irena;
- Marass, Francesco;
- Mair, Richard;
- Brindle, Kevin M.
Publication type:
Article
Enhanced detection of circulating tumor DNA by fragment size analysis.
Published in:
Science Translational Medicine, 2018, v. 10, n. 466, p. 1, doi. 10.1126/scitranslmed.aat4921
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
Publication type:
Article
Clinical and pathological impact of VHL, PBRM1, BAP1, SETD2, KDM6A, and JARID1c in clear cell renal cell carcinoma.
Published in:
Genes, Chromosomes & Cancer, 2014, v. 53, n. 1, p. 38, doi. 10.1002/gcc.22116
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
Publication type:
Article
Non-invasive analysis of acquired resistance to cancer therapy by sequencing of plasma DNA.
Published in:
Nature, 2013, v. 497, n. 7447, p. 108, doi. 10.1038/nature12065
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
Publication type:
Article
Clinical validation of a next-generation sequencing-based multi-cancer early detection "liquid biopsy" blood test in over 1,000 dogs using an independent testing set: The CANcer Detection in Dogs (CANDiD) study.
Published in:
PLoS ONE, 2022, v. 17, n. 4, p. 1, doi. 10.1371/journal.pone.0266623
By:
- Flory, Andi;
- Kruglyak, Kristina M.;
- Tynan, John A.;
- McLennan, Lisa M.;
- Rafalko, Jill M.;
- Fiaux, Patrick Christian;
- Hernandez, Gilberto E.;
- Marass, Francesco;
- Nakashe, Prachi;
- Ruiz-Perez, Carlos A.;
- Fath, Donna M.;
- Jennings, Thuy;
- Motalli-Pepio, Rita;
- Wotrang, Kate;
- McCleary-Wheeler, Angela L.;
- Lana, Susan;
- Phillips, Brenda;
- Flesner, Brian K.;
- Leibman, Nicole F.;
- LaDue, Tracy
Publication type:
Article
JaPaFi: A Novel Program for the Identification of Highly Conserved DNA Sequences.
Published in:
Viruses (1999-4915), 2010, v. 2, n. 9, p. 1867, doi. 10.3390/v2091867
By:
- Sadeque, Aliya;
- Barsky, Marina;
- Marass, Francesco;
- Kruczkiewicz, Peter;
- Upton, Chris
Publication type:
Article
BnpC: Bayesian non-parametric clustering of single-cell mutation profiles.
Published in:
Bioinformatics, 2020, v. 36, n. 19, p. 4854, doi. 10.1093/bioinformatics/btaa599
By:
- Borgsmüller, Nico;
- Bonet, Jose;
- Marass, Francesco;
- Gonzalez-Perez, Abel;
- Lopez-Bigas, Nuria;
- Beerenwinkel, Niko
Publication type:
Article
Detection of Age-Related Somatic Alterations in Canine Blood Using Next-Generation Sequencing-Based Liquid Biopsy: An Analysis of over 4800 Dogs.
Published in:
Veterinary Sciences, 2023, v. 10, n. 7, p. 455, doi. 10.3390/vetsci10070455
By:
- Kruglyak, Kristina M.;
- O'Kell, Allison L.;
- Cohen, Todd A.;
- Marshall, Maggie A.;
- Ruiz-Perez, Carlos A.;
- Marass, Francesco;
- Tynan, John A.;
- Hicks, Susan C.;
- Lytle, Katherine M.;
- Phelps-Dunn, Ashley;
- Brandstetter, Gina;
- Warren, Chelsea D.;
- DiMarzio, Lauren R.;
- Rosentel, Michelle C.;
- Wong, Lilian K.;
- McLennan, Lisa M.;
- Rafalko, Jill M.;
- Grosu, Daniel S.;
- Chibuk, Jason;
- Chorny, Ilya
Publication type:
Article

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