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qpure: A tool to estimate tumor cellularity from genome-wide single-nucleotide polymorphism profiles.
Song S, Nones K, Miller D, Harliwong I, Kassahn KS, Pinese M, Pajic M, Gill AJ, Johns AL, Anderson M, Holmes O, Leonard C, Taylor D, Wood S, Xu Q, Newell F, Cowley MJ, Wu J, Wilson P, Fink L, Biankin AV, Waddell N, Grimmond SM, Pearson JV. Song S, et al. Among authors: fink l. PLoS One. 2012;7(9):e45835. doi: 10.1371/journal.pone.0045835. Epub 2012 Sep 25. PLoS One. 2012. PMID: 23049875 Free PMC article.
Somatic point mutation calling in low cellularity tumors.
Kassahn KS, Holmes O, Nones K, Patch AM, Miller DK, Christ AN, Harliwong I, Bruxner TJ, Xu Q, Anderson M, Wood S, Leonard C, Taylor D, Newell F, Song S, Idrisoglu S, Nourse C, Nourbakhsh E, Manning S, Wani S, Steptoe A, Pajic M, Cowley MJ, Pinese M, Chang DK, Gill AJ, Johns AL, Wu J, Wilson PJ, Fink L, Biankin AV, Waddell N, Grimmond SM, Pearson JV. Kassahn KS, et al. Among authors: fink l. PLoS One. 2013 Nov 8;8(11):e74380. doi: 10.1371/journal.pone.0074380. eCollection 2013. PLoS One. 2013. PMID: 24250782 Free PMC article.
Genome-wide DNA methylation patterns in pancreatic ductal adenocarcinoma reveal epigenetic deregulation of SLIT-ROBO, ITGA2 and MET signaling.
Nones K, Waddell N, Song S, Patch AM, Miller D, Johns A, Wu J, Kassahn KS, Wood D, Bailey P, Fink L, Manning S, Christ AN, Nourse C, Kazakoff S, Taylor D, Leonard C, Chang DK, Jones MD, Thomas M, Watson C, Pinese M, Cowley M, Rooman I, Pajic M; APGI; Butturini G, Malpaga A, Corbo V, Crippa S, Falconi M, Zamboni G, Castelli P, Lawlor RT, Gill AJ, Scarpa A, Pearson JV, Biankin AV, Grimmond SM. Nones K, et al. Among authors: fink l. Int J Cancer. 2014 Sep 1;135(5):1110-8. doi: 10.1002/ijc.28765. Epub 2014 May 9. Int J Cancer. 2014. PMID: 24500968 Free article.
Genomic analyses identify molecular subtypes of pancreatic cancer.
Bailey P, Chang DK, Nones K, Johns AL, Patch AM, Gingras MC, Miller DK, Christ AN, Bruxner TJ, Quinn MC, Nourse C, Murtaugh LC, Harliwong I, Idrisoglu S, Manning S, Nourbakhsh E, Wani S, Fink L, Holmes O, Chin V, Anderson MJ, Kazakoff S, Leonard C, Newell F, Waddell N, Wood S, Xu Q, Wilson PJ, Cloonan N, Kassahn KS, Taylor D, Quek K, Robertson A, Pantano L, Mincarelli L, Sanchez LN, Evers L, Wu J, Pinese M, Cowley MJ, Jones MD, Colvin EK, Nagrial AM, Humphrey ES, Chantrill LA, Mawson A, Humphris J, Chou A, Pajic M, Scarlett CJ, Pinho AV, Giry-Laterriere M, Rooman I, Samra JS, Kench JG, Lovell JA, Merrett ND, Toon CW, Epari K, Nguyen NQ, Barbour A, Zeps N, Moran-Jones K, Jamieson NB, Graham JS, Duthie F, Oien K, Hair J, Grützmann R, Maitra A, Iacobuzio-Donahue CA, Wolfgang CL, Morgan RA, Lawlor RT, Corbo V, Bassi C, Rusev B, Capelli P, Salvia R, Tortora G, Mukhopadhyay D, Petersen GM; Australian Pancreatic Cancer Genome Initiative; Munzy DM, Fisher WE, Karim SA, Eshleman JR, Hruban RH, Pilarsky C, Morton JP, Sansom OJ, Scarpa A, Musgrove EA, Bailey UM, Hofmann O, Sutherland RL, Wheeler DA, Gill AJ, Gibbs RA, Pearson JV, Waddell N, Biankin AV, Grimmond SM. Bailey P, et al. Among authors: fink l. Nature. 2016 Mar 3;531(7592):47-52. doi: 10.1038/nature16965. Epub 2016 Feb 24. Nature. 2016. PMID: 26909576
Comparative performance of the BGI and Illumina sequencing technology for single-cell RNA-sequencing.
Senabouth A, Andersen S, Shi Q, Shi L, Jiang F, Zhang W, Wing K, Daniszewski M, Lukowski SW, Hung SSC, Nguyen Q, Fink L, Beckhouse A, Pébay A, Hewitt AW, Powell JE. Senabouth A, et al. Among authors: fink l. NAR Genom Bioinform. 2020 May 13;2(2):lqaa034. doi: 10.1093/nargab/lqaa034. eCollection 2020 Jun. NAR Genom Bioinform. 2020. PMID: 33575589 Free PMC article.
EBV-associated primary CNS lymphoma occurring after immunosuppression is a distinct immunobiological entity.
Gandhi MK, Hoang T, Law SC, Brosda S, O'Rourke K, Tobin JWD, Vari F, Murigneux V, Fink L, Gunawardana J, Gould C, Oey H, Bednarska K, Delecluse S, Trappe RU, Merida de Long L, Sabdia MB, Bhagat G, Hapgood G, Blyth E, Clancy L, Wight J, Hawkes E, Rimsza LM, Maguire A, Bojarczuk K, Chapuy B, Keane C. Gandhi MK, et al. Among authors: fink l. Blood. 2021 Mar 18;137(11):1468-1477. doi: 10.1182/blood.2020008520. Blood. 2021. PMID: 33202420 Free PMC article.
SARS-CoV-2 wastewater variant surveillance: pandemic response leveraging FDA's GenomeTrakr network.
Timme RE, Woods J, Jones JL, Calci KR, Rodriguez R, Barnes C, Leard E, Craven M, Chen H, Boerner C, Grim C, Windsor AM, Ramachandran P, Muruvanda T, Rand H, Tesfaldet B, Amirzadegan J, Kayikcioglu T, Walsky T, Allard M, Balkey M, Bias CH, Brown E, Judy K, Pfefer T, Tallent SM, Hoffmann M; GenomeTrakr Laboratory consortium; Pettengill J. Timme RE, et al. mSystems. 2024 May 31:e0141523. doi: 10.1128/msystems.01415-23. Online ahead of print. mSystems. 2024. PMID: 38819130 Free article.
536 results