Literature DB >> 33163139

Harnessing Big Data with Machine Learning in Precision Oncology.

Nirmish Singla1, Shyamli Singla2.   

Abstract

While multi-level molecular "omic" analyses have undoubtedly increased the sophistication and depth with which we can understand cancer biology, the challenge is to make this overwhelming wealth of data relevant to the clinician and the individual patient. Bridging this gap serves as the cornerstone of precision medicine, yet the expense and difficulty of executing and interpreting these molecular studies make it impractical to routinely implement them in the clinical setting. Herein, we propose that machine learning may hold the key to guiding the future of precision oncology accurately and efficiently. Training deep learning models to interpret the histopathologic or radiographic appearance of tumors and their microenvironment-a phenotypic microcosm of their inherent molecular biology-has the potential to output relevant diagnostic, prognostic, and therapeutic patient-level data. This type of artificial intelligence framework may effectively shape the future of precision oncology by fostering multidisciplinary collaboration.

Entities:  

Year:  2020        PMID: 33163139      PMCID: PMC7644120     

Source DB:  PubMed          Journal:  Kidney Cancer J        ISSN: 1933-0863


  6 in total

1.  Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma.

Authors:  David J Clark; Saravana M Dhanasekaran; Francesca Petralia; Jianbo Pan; Xiaoyu Song; Yingwei Hu; Felipe da Veiga Leprevost; Boris Reva; Tung-Shing M Lih; Hui-Yin Chang; Weiping Ma; Chen Huang; Christopher J Ricketts; Lijun Chen; Azra Krek; Yize Li; Dmitry Rykunov; Qing Kay Li; Lin S Chen; Umut Ozbek; Suhas Vasaikar; Yige Wu; Seungyeul Yoo; Shrabanti Chowdhury; Matthew A Wyczalkowski; Jiayi Ji; Michael Schnaubelt; Andy Kong; Sunantha Sethuraman; Dmitry M Avtonomov; Minghui Ao; Antonio Colaprico; Song Cao; Kyung-Cho Cho; Selim Kalayci; Shiyong Ma; Wenke Liu; Kelly Ruggles; Anna Calinawan; Zeynep H Gümüş; Daniel Geiszler; Emily Kawaler; Guo Ci Teo; Bo Wen; Yuping Zhang; Sarah Keegan; Kai Li; Feng Chen; Nathan Edwards; Phillip M Pierorazio; Xi Steven Chen; Christian P Pavlovich; A Ari Hakimi; Gabriel Brominski; James J Hsieh; Andrzej Antczak; Tatiana Omelchenko; Jan Lubinski; Maciej Wiznerowicz; W Marston Linehan; Christopher R Kinsinger; Mathangi Thiagarajan; Emily S Boja; Mehdi Mesri; Tara Hiltke; Ana I Robles; Henry Rodriguez; Jiang Qian; David Fenyö; Bing Zhang; Li Ding; Eric Schadt; Arul M Chinnaiyan; Zhen Zhang; Gilbert S Omenn; Marcin Cieslik; Daniel W Chan; Alexey I Nesvizhskii; Pei Wang; Hui Zhang
Journal:  Cell       Date:  2019-10-31       Impact factor: 41.582

2.  Progress Toward Precision Medicine in Frontline Treatment of Metastatic Renal Cell Carcinoma.

Authors:  Nirmish Singla
Journal:  JAMA Oncol       Date:  2020-01-01       Impact factor: 31.777

3.  Tracking Cancer Evolution Reveals Constrained Routes to Metastases: TRACERx Renal.

Authors:  Samra Turajlic; Hang Xu; Kevin Litchfield; Andrew Rowan; Tim Chambers; Jose I Lopez; David Nicol; Tim O'Brien; James Larkin; Stuart Horswell; Mark Stares; Lewis Au; Mariam Jamal-Hanjani; Ben Challacombe; Ashish Chandra; Steve Hazell; Claudia Eichler-Jonsson; Aspasia Soultati; Simon Chowdhury; Sarah Rudman; Joanna Lynch; Archana Fernando; Gordon Stamp; Emma Nye; Faiz Jabbar; Lavinia Spain; Sharanpreet Lall; Rosa Guarch; Mary Falzon; Ian Proctor; Lisa Pickering; Martin Gore; Thomas B K Watkins; Sophia Ward; Aengus Stewart; Renzo DiNatale; Maria F Becerra; Ed Reznik; James J Hsieh; Todd A Richmond; George F Mayhew; Samantha M Hill; Catherine D McNally; Carol Jones; Heidi Rosenbaum; Stacey Stanislaw; Daniel L Burgess; Nelson R Alexander; Charles Swanton
Journal:  Cell       Date:  2018-04-12       Impact factor: 41.582

4.  Deterministic Evolutionary Trajectories Influence Primary Tumor Growth: TRACERx Renal.

Authors:  Samra Turajlic; Hang Xu; Kevin Litchfield; Andrew Rowan; Stuart Horswell; Tim Chambers; Tim O'Brien; Jose I Lopez; Thomas B K Watkins; David Nicol; Mark Stares; Ben Challacombe; Steve Hazell; Ashish Chandra; Thomas J Mitchell; Lewis Au; Claudia Eichler-Jonsson; Faiz Jabbar; Aspasia Soultati; Simon Chowdhury; Sarah Rudman; Joanna Lynch; Archana Fernando; Gordon Stamp; Emma Nye; Aengus Stewart; Wei Xing; Jonathan C Smith; Mickael Escudero; Adam Huffman; Nik Matthews; Greg Elgar; Ben Phillimore; Marta Costa; Sharmin Begum; Sophia Ward; Max Salm; Stefan Boeing; Rosalie Fisher; Lavinia Spain; Carolina Navas; Eva Grönroos; Sebastijan Hobor; Sarkhara Sharma; Ismaeel Aurangzeb; Sharanpreet Lall; Alexander Polson; Mary Varia; Catherine Horsfield; Nicos Fotiadis; Lisa Pickering; Roland F Schwarz; Bruno Silva; Javier Herrero; Nick M Luscombe; Mariam Jamal-Hanjani; Rachel Rosenthal; Nicolai J Birkbak; Gareth A Wilson; Orsolya Pipek; Dezso Ribli; Marcin Krzystanek; Istvan Csabai; Zoltan Szallasi; Martin Gore; Nicholas McGranahan; Peter Van Loo; Peter Campbell; James Larkin; Charles Swanton
Journal:  Cell       Date:  2018-04-12       Impact factor: 41.582

5.  Timing the Landmark Events in the Evolution of Clear Cell Renal Cell Cancer: TRACERx Renal.

Authors:  Thomas J Mitchell; Samra Turajlic; Andrew Rowan; David Nicol; James H R Farmery; Tim O'Brien; Inigo Martincorena; Patrick Tarpey; Nicos Angelopoulos; Lucy R Yates; Adam P Butler; Keiran Raine; Grant D Stewart; Ben Challacombe; Archana Fernando; Jose I Lopez; Steve Hazell; Ashish Chandra; Simon Chowdhury; Sarah Rudman; Aspasia Soultati; Gordon Stamp; Nicos Fotiadis; Lisa Pickering; Lewis Au; Lavinia Spain; Joanna Lynch; Mark Stares; Jon Teague; Francesco Maura; David C Wedge; Stuart Horswell; Tim Chambers; Kevin Litchfield; Hang Xu; Aengus Stewart; Reza Elaidi; Stéphane Oudard; Nicholas McGranahan; Istvan Csabai; Martin Gore; P Andrew Futreal; James Larkin; Andy G Lynch; Zoltan Szallasi; Charles Swanton; Peter J Campbell
Journal:  Cell       Date:  2018-04-12       Impact factor: 41.582

6.  Ontological analyses reveal clinically-significant clear cell renal cell carcinoma subtypes with convergent evolutionary trajectories into an aggressive type.

Authors:  Qi Cai; Alana Christie; Satwik Rajaram; Qinbo Zhou; Ellen Araj; Suneetha Chintalapati; Jeffrey Cadeddu; Vitaly Margulis; Ivan Pedrosa; Dinesh Rakheja; Renee M McKay; James Brugarolas; Payal Kapur
Journal:  EBioMedicine       Date:  2019-12-16       Impact factor: 8.143

  6 in total
  1 in total

1.  An Artificial Intelligence-Based Tool for Data Analysis and Prognosis in Cancer Patients: Results from the Clarify Study.

Authors:  María Torrente; Pedro A Sousa; Roberto Hernández; Mariola Blanco; Virginia Calvo; Ana Collazo; Gracinda R Guerreiro; Beatriz Núñez; Joao Pimentao; Juan Cristóbal Sánchez; Manuel Campos; Luca Costabello; Vit Novacek; Ernestina Menasalvas; María Esther Vidal; Mariano Provencio
Journal:  Cancers (Basel)       Date:  2022-08-22       Impact factor: 6.575

  1 in total

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