Skip to content

Research at St Andrews

Decomposition of mutational context signatures using quadratic programming methods

Research output: Contribution to journalArticle

Author(s)

School/Research organisations

Abstract

Methods for inferring signatures of mutational contexts from large cancer sequencing data sets are invaluable for biological research, but impractical for clinical application where we require tools that decompose the context data for an individual into signatures. One such method has recently been published using an iterative linear modelling approach. A natural alternative places the problem within a quadratic programming framework and is presented here, where it is seen to offer advantages of speed and accuracy.

Close

Details

Original languageEnglish
Article number1253
JournalF1000Research
Volume5
DOIs
Publication statusPublished - 7 Jun 2016

Discover related content
Find related publications, people, projects and more using interactive charts.

View graph of relations

Related by author

  1. Multicentre validation of the CamGFR model for estimated glomerular filtration rate

    Williams, E. H., Connell, C. M., Weaver, J. M. J., Beh, I., Potts, H., Whitley, C. T., Bird, N., Al-Sayed, T., Fehr, M., Cathomas, R., Bertelli, G., Quinton, A., Lewis, P., Shamash, J., Wilson, P., Dooley, M., Poole, S., Mark, P. B., Bookman, M., Earl, H. & 4 others, Jodrell, D., Tavaré, S., Lynch, A. & Janowitz, T., 19 Sep 2019, In : JNCI Cancer Spectrum.

    Research output: Contribution to journalArticle

  2. Deciphering the genomic, epigenomic and transcriptomic landscapes of pre-invasive lung cancer lesions

    Texeira, V. H., Pipinikas, C. P., Pennycuick, A., Lee-Six, H., Chandrasekharan, D., Beane, J., Morris, T. J., Karpathakis, A., Feber, A., Breeze, C. E., Ntolios, P., Hynds, R. E., Falzon, M., Capitanio, A., Carroll, B., Durrenberger, P. F., Hardavella, G., Brown, J. M., Lynch, A. G., Farmery, H. & 12 others, Paul, D. S., Chambers, R. C., McGranahan, N., Navani, N., Thakrar, R. M., Swanton, C., Beck, S., George, P. J., Spira, A., Campbell, P. J., Thirwell, C. & Janes, S. M., Mar 2019, In : Nature Medicine. 25, p. 517-525 9 p.

    Research output: Contribution to journalArticle

  3. DESNT: a poor prognosis category of human prostate cancer

    Luca, B-A., Brewer, D. S., Edwards, D. R., Edwards, S., Whitaker, H. C., Merson, S., Dennis, N., Cooper, R. A., Hazell, S., Warren, A. Y., Eeles, R., Lynch, A. G., Ross-Adams, H., Lamb, A. D., Neal, D. E., Sethia, K., Mills, R. D., Ball, R. Y., Curley, H., Clark, J. & 2 others, Moulton, V. & Cooper, C. S., Dec 2018, In : European Urology Focus. 4, 6, p. 842-850 9 p.

    Research output: Contribution to journalArticle

  4. Timing the landmark events in the evolution of clear cell renal cell cancer: TRACERx renal

    Mitchell, T. J., Turajlic, S., Rowan, A., Nicol, D., Farmery, J. H. R., O’Brien, T., Martincorena, I., Tarpey, P., Angelopoulos, N., Yates, L. R., Butler, A. P., Raine, K., Stewart, G. D., Challacombe, B., Fernando, A., Lopez, J. I., Hazell, S., Chandra, A., Chowdhury, S., Rudman, S. & 27 others, Soultati, A., Stamp, G., Fotiadis, N., Pickering, L., Au, L., Spain, L., Lynch, J., Stares, M., Teague, J., Maura, F., Wedge, D. C., Horswell, S., Chambers, T., Litchfield, K., Xu, H., Stewart, A., Elaidi, R., Oudard, S., McGranahan, N., Csabai, I., Gore, M., Futreal, P. A., Larkin, J., Lynch, A. G., Szallasi, Z., Swanton, C. & Campbell, P. J., 19 Apr 2018, In : Cell. 173, 3, p. 611-623 13 p., e17.

    Research output: Contribution to journalArticle

Related by journal

  1. Metabolic reprogramming during the Trypanosoma brucei life cycle

    Smith, T. K., Bringaud, F., Nolan, D. P. & Figueiredo, L. M., 18 May 2017, In : F1000Research. 6, 683.

    Research output: Contribution to journalReview article

  2. Professional medical writing support and the reporting quality of randomized controlled trial abstracts among high-impact general medical journals

    Mills, I., Sheard, C., Hays, M., Douglas, K., Winchester, C. C. & Gattrell, W. T., 23 Sep 2017, In : F1000Research. 6, 12 p., 1489.

    Research output: Contribution to journalArticle

  3. Recent advances in understanding the roles of whole genome duplications in evolution

    MacKintosh, C. & Ferrier, D. E. K., 31 Aug 2017, In : F1000Research. 2017, 6, 1623.

    Research output: Contribution to journalReview article

  4. Whole-genome sequencing of nine esophageal adenocarcinoma cell lines

    Contino, G., Eldridge, M. D., Secrier, M., Bower, L., Elliott, R. F., Weaver, J., Lynch, A. G., Edwards, P. A. W. & Fitzgerald, R. C., 10 Jun 2016, In : F1000Research. 5, 1336.

    Research output: Contribution to journalArticle

ID: 250827830

Top