Literature DB >> 28835719

Unravelling biology and shifting paradigms in cancer with single-cell sequencing.

Timour Baslan1, James Hicks2.   

Abstract

The fundamental operative unit of a cancer is the genetically and epigenetically innovative single cell. Whether proliferating or quiescent, in the primary tumour mass or disseminated elsewhere, single cells govern the parameters that dictate all facets of the biology of cancer. Thus, single-cell analyses provide the ultimate level of resolution in our quest for a fundamental understanding of this disease. Historically, this quest has been hampered by technological shortcomings. In this Opinion article, we argue that the rapidly evolving field of single-cell sequencing has unshackled the cancer research community of these shortcomings. From furthering an elemental understanding of intra-tumoural genetic heterogeneity and cancer genome evolution to illuminating the governing principles of disease relapse and metastasis, we posit that single-cell sequencing promises to unravel the biology of all facets of this disease.

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Year:  2017        PMID: 28835719     DOI: 10.1038/nrc.2017.58

Source DB:  PubMed          Journal:  Nat Rev Cancer        ISSN: 1474-175X            Impact factor:   60.716


  211 in total

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Journal:  Nat Rev Genet       Date:  2015-10-13       Impact factor: 53.242

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Authors:  Oliver Stegle; Sarah A Teichmann; John C Marioni
Journal:  Nat Rev Genet       Date:  2015-01-28       Impact factor: 53.242

3.  Analyzing tumor heterogeneity and driver genes in single myeloid leukemia cells with SBCapSeq.

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Journal:  Nat Biotechnol       Date:  2016-08-01       Impact factor: 54.908

Review 4.  The future is now: single-cell genomics of bacteria and archaea.

Authors:  Paul C Blainey
Journal:  FEMS Microbiol Rev       Date:  2013-02-11       Impact factor: 16.408

5.  Dynamics of genomic clones in breast cancer patient xenografts at single-cell resolution.

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Journal:  Nature       Date:  2014-11-26       Impact factor: 49.962

Review 6.  Mutations in regulators of the epigenome and their connections to global chromatin patterns in cancer.

Authors:  Christoph Plass; Stefan M Pfister; Anders M Lindroth; Olga Bogatyrova; Rainer Claus; Peter Lichter
Journal:  Nat Rev Genet       Date:  2013-10-09       Impact factor: 53.242

7.  EGFR variant heterogeneity in glioblastoma resolved through single-nucleus sequencing.

Authors:  Joshua M Francis; Cheng-Zhong Zhang; Cecile L Maire; Joonil Jung; Veronica E Manzo; Viktor A Adalsteinsson; Heather Homer; Sam Haidar; Brendan Blumenstiel; Chandra Sekhar Pedamallu; Azra H Ligon; J Christopher Love; Matthew Meyerson; Keith L Ligon
Journal:  Cancer Discov       Date:  2014-06-03       Impact factor: 39.397

Review 8.  The cancer genome.

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Journal:  Nature       Date:  2009-04-09       Impact factor: 49.962

9.  A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response.

Authors:  Britt Adamson; Thomas M Norman; Marco Jost; Min Y Cho; James K Nuñez; Yuwen Chen; Jacqueline E Villalta; Luke A Gilbert; Max A Horlbeck; Marco Y Hein; Ryan A Pak; Andrew N Gray; Carol A Gross; Atray Dixit; Oren Parnas; Aviv Regev; Jonathan S Weissman
Journal:  Cell       Date:  2016-12-15       Impact factor: 41.582

10.  Rapid phenotypic and genomic change in response to therapeutic pressure in prostate cancer inferred by high content analysis of single circulating tumor cells.

Authors:  Angel E Dago; Asya Stepansky; Anders Carlsson; Madelyn Luttgen; Jude Kendall; Timour Baslan; Anand Kolatkar; Michael Wigler; Kelly Bethel; Mitchell E Gross; James Hicks; Peter Kuhn
Journal:  PLoS One       Date:  2014-08-01       Impact factor: 3.240

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  82 in total

Review 1.  The Pediatric Cell Atlas: Defining the Growth Phase of Human Development at Single-Cell Resolution.

Authors:  Deanne M Taylor; Bruce J Aronow; Kai Tan; Kathrin Bernt; Nathan Salomonis; Casey S Greene; Alina Frolova; Sarah E Henrickson; Andrew Wells; Liming Pei; Jyoti K Jaiswal; Jeffrey Whitsett; Kathryn E Hamilton; Sonya A MacParland; Judith Kelsen; Robert O Heuckeroth; S Steven Potter; Laura A Vella; Natalie A Terry; Louis R Ghanem; Benjamin C Kennedy; Ingo Helbig; Kathleen E Sullivan; Leslie Castelo-Soccio; Arnold Kreigstein; Florian Herse; Martijn C Nawijn; Gerard H Koppelman; Melissa Haendel; Nomi L Harris; Jo Lynne Rokita; Yuanchao Zhang; Aviv Regev; Orit Rozenblatt-Rosen; Jennifer E Rood; Timothy L Tickle; Roser Vento-Tormo; Saif Alimohamed; Monkol Lek; Jessica C Mar; Kathleen M Loomes; David M Barrett; Prech Uapinyoying; Alan H Beggs; Pankaj B Agrawal; Yi-Wen Chen; Amanda B Muir; Lana X Garmire; Scott B Snapper; Javad Nazarian; Steven H Seeholzer; Hossein Fazelinia; Larry N Singh; Robert B Faryabi; Pichai Raman; Noor Dawany; Hongbo Michael Xie; Batsal Devkota; Sharon J Diskin; Stewart A Anderson; Eric F Rappaport; William Peranteau; Kathryn A Wikenheiser-Brokamp; Sarah Teichmann; Douglas Wallace; Tao Peng; Yang-Yang Ding; Man S Kim; Yi Xing; Sek Won Kong; Carsten G Bönnemann; Kenneth D Mandl; Peter S White
Journal:  Dev Cell       Date:  2019-03-28       Impact factor: 12.270

Review 2.  Taking Systems Medicine to Heart.

Authors:  Kalliopi Trachana; Rhishikesh Bargaje; Gustavo Glusman; Nathan D Price; Sui Huang; Leroy E Hood
Journal:  Circ Res       Date:  2018-04-27       Impact factor: 17.367

Review 3.  Power in Numbers: Single-Cell RNA-Seq Strategies to Dissect Complex Tissues.

Authors:  Kenneth D Birnbaum
Journal:  Annu Rev Genet       Date:  2018-09-07       Impact factor: 16.830

Review 4.  Genomic and phenotypic heterogeneity in prostate cancer.

Authors:  Michael C Haffner; Wilbert Zwart; Martine P Roudier; Lawrence D True; William G Nelson; Jonathan I Epstein; Angelo M De Marzo; Peter S Nelson; Srinivasan Yegnasubramanian
Journal:  Nat Rev Urol       Date:  2020-12-16       Impact factor: 14.432

Review 5.  Defining the Hallmarks of Metastasis.

Authors:  Danny R Welch; Douglas R Hurst
Journal:  Cancer Res       Date:  2019-05-03       Impact factor: 12.701

6.  Emerging Frontiers in the Study of Molecular Evolution.

Authors:  David A Liberles; Belinda Chang; Kerry Geiler-Samerotte; Aaron Goldman; Jody Hey; Betül Kaçar; Michelle Meyer; William Murphy; David Posada; Andrew Storfer
Journal:  J Mol Evol       Date:  2020-04       Impact factor: 2.395

7.  e-MutPath: computational modeling reveals the functional landscape of genetic mutations rewiring interactome networks.

Authors:  Yongsheng Li; Brandon Burgman; Ishaani S Khatri; Sairahul R Pentaparthi; Zhe Su; Daniel J McGrail; Yang Li; Erxi Wu; S Gail Eckhardt; Nidhi Sahni; S Stephen Yi
Journal:  Nucleic Acids Res       Date:  2021-01-11       Impact factor: 16.971

8.  Tumor Cell Biodiversity Drives Microenvironmental Reprogramming in Liver Cancer.

Authors:  Lichun Ma; Maria O Hernandez; Yongmei Zhao; Monika Mehta; Bao Tran; Michael Kelly; Zachary Rae; Jonathan M Hernandez; Jeremy L Davis; Sean P Martin; David E Kleiner; Stephen M Hewitt; Kris Ylaya; Bradford J Wood; Tim F Greten; Xin Wei Wang
Journal:  Cancer Cell       Date:  2019-10-03       Impact factor: 31.743

Review 9.  Strategic vision for improving human health at The Forefront of Genomics.

Authors:  Eric D Green; Chris Gunter; Leslie G Biesecker; Valentina Di Francesco; Carla L Easter; Elise A Feingold; Adam L Felsenfeld; David J Kaufman; Elaine A Ostrander; William J Pavan; Adam M Phillippy; Anastasia L Wise; Jyoti Gupta Dayal; Britny J Kish; Allison Mandich; Christopher R Wellington; Kris A Wetterstrand; Sarah A Bates; Darryl Leja; Susan Vasquez; William A Gahl; Bettie J Graham; Daniel L Kastner; Paul Liu; Laura Lyman Rodriguez; Benjamin D Solomon; Vence L Bonham; Lawrence C Brody; Carolyn M Hutter; Teri A Manolio
Journal:  Nature       Date:  2020-10-28       Impact factor: 49.962

Review 10.  A compendium of mutational cancer driver genes.

Authors:  Francisco Martínez-Jiménez; Ferran Muiños; Inés Sentís; Jordi Deu-Pons; Iker Reyes-Salazar; Claudia Arnedo-Pac; Loris Mularoni; Oriol Pich; Jose Bonet; Hanna Kranas; Abel Gonzalez-Perez; Nuria Lopez-Bigas
Journal:  Nat Rev Cancer       Date:  2020-08-10       Impact factor: 60.716

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