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Dr. Lincoln Stein integrates and interprets large and complicated cancer-related datasets, developing visualization tools to turn raw data into meaningful information for biologists, clinicians and trainees.
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Dr. Lincoln Stein integrates and interprets large and complicated cancer-related datasets, developing visualization tools to turn raw data into meaningful information for biologists, clinicians and trainees.
EXPLORE >   Researchers >  Lincoln Stein
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Dr. Stein is focused on the development of innovative solutions to handle the large and complicated datasets that new cancer research and technologies generate. He leads the Informatics and Bio-computing Platform at the Ontario Institute for Cancer Research (OICR), which integrates and interprets cancer research data, developing visualization tools to turn raw data into meaningful information for biologists, clinicians and trainees. Dr. Stein and his team are developing software for computational biology and genome bioinformatics. For example, Wormbase, is a database of sequence information for Caenorhabditis elegans enabling users to obtain sequences and genome annotation, assists users in selecting SNPs and visible genetic markers for mapping experiments, as well as a means for scientists to submit their data. Other databases include: Reactome, a database of pathways, Gramene a database for comparative grain genomics and the Generic Model Organism Database (GMOD) which is a collection of open source software tools for creating and managing genome-scale biological databases. Dr. Stein is also involved in data co-ordination for the international HapMap Project which is describing the common patterns of human DNA sequence variation.
Researcher Information
Platform Leader
Informatics and Biocomputing
MaRS Centre, South Tower
101 College Street, Suite 800
Toronto, Ontario
Canada M5G 0A3
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Biography
Dr. Lincoln Stein completed his PhD in Cell Biology at Harvard University and in 1992 he completed his Residency in Anatomic Pathology at the Brigham & Women’s Hospital in Boston, Massachusetts. From 1992 to 1997 he was the Director of the Informatics Core at the Massachusetts Institute of Technology (MIT) Genome Center and the Whitehead Institute of Biomedical Research, MIT. Dr. Stein is the Platform Leader of Informatics and Bio-computing at the Ontario Institute of Cancer Research as well as Professor at the Cold Spring Harbour Laboratory in Long Island, New York. He writes software for biological databases, for data analysis and visualization as well as publishing several books and journal articles about the Web.
Researcher Information
Platform Leader
Informatics and Biocomputing
MaRS Centre, South Tower
101 College Street, Suite 800
Toronto, Ontario
Canada M5G 0A3


Key Publications
Liang C, Mao L, Ware D, Stein L. Evidence-based gene predictions in plant genomes. Genome Res. 2009 Jun 18.
Celniker SE, Dillon LA, Gerstein MB, Gunsalus KC, Henikoff S, Karpen GH, Kellis M, Lai EC, Lieb JD, MacAlpine DM, Micklem G, Piano F, Snyder M, Stein L, White KP, Waterston RH; modENCODE Consortium. Unlocking the secrets of the genome. Nature. 2009 Jun 18;459(7249):927-30.
Liang C, Jaiswal P, Hebbard C, Avraham S, Buckler ES, Casstevens T, Hurwitz B, McCouch S, Ni J, Pujar A, Ravenscroft D, Ren L, Spooner W, Tecle I, Thomason J, Tung C, Wei X, Yap I, Youens-Clark K, Ware D, Stein L. Gramene: a growing plant comparative genomics resource. Nucleic Acids Research. 2007; 1–7.
Schmidt CJ, Romanov M, Ryder O, Magrini V, Hickenbotham M, Glasscock J, McGrath S, Mardis E, Stein LD. Gallus G. Browse: a unified genomic database for the chicken. Nucleic Acids Research, 2007; 1–5.
Vastrik I, D'Eustachio P, Schmidt E, Joshi-Tope G, Gopinath G, Croft D, de Bono B, Gillespie M, Jassal B, Lewis S, Matthews L, Wu G, Birney E, Stein L. Reactome: a knowledge base of biologic pathways and processes. Genome Biology; 2007, 8:R39
Researcher Information
Platform Leader
Informatics and Biocomputing
MaRS Centre, South Tower
101 College Street, Suite 800
Toronto, Ontario
Canada M5G 0A3


Intellectual Property

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CATEGORIES
Application Area
Human health, Instrumentation and tools
Disciplinary Focus
Clinical science, Experimental biology and chemistry, Informatics, theoretical biology and computer science
Research Paradigm
Focused-scope projects, Large-scale projects, Technology development
Organism
Human, Nematode and worm
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