Reading PAGE

Peer Evaluation activity

Downloads 14
Views 63

Total impact ?

    Send a

    Limsoon has...

    Trusted 0
    Reviewed 0
    Emailed 0
    Shared/re-used 0
    Discussed 0
    Invited 0
    Collected 0

    This was brought to you by:

    block this user Limsoon Wong Trusted member

    Professor

    Dept of Computer Science, National University of Singapore

    Selection of patient samples and genes for outcome prediction.

    Export to Mendeley

    Gene expression profiles with clinical outcome data enable monitoring of disease progression and prediction of patient survival at the molecular level. We present a new computational method for outcome prediction. Our idea is to use an informative subset of original training samples. This subset consists of only short-term survivors who died within a short period and long-term survivors who were still alive after a long follow-up time. These extreme training samples yield a clear platform to identify genes whose expression is related to survival. To find relevant genes, we combine two feature selection methods - entropy measure and Wilcoxon rank sum test - so that a set of sharp discriminating features are identified. The selected training samples and genes are then integrated by a support vector machine to build a prediction model, by which each validation sample is assigned a survival/relapse risk score for drawing Kaplan-Meier survival curves. We apply this method to two data sets: diffuse large-B-cell lymphoma (DLBCL) and primary lung adenocarcinoma. In both cases, patients in high and low risk groups stratified by our risk scores are clearly distinguishable. We also compare our risk scores to some clinical factors, such as International Prognostic Index score for DLBCL analysis and tumor stage information for lung adenocarcinoma. Our results indicate that gene expression profiles combined with carefully chosen learning algorithms can predict patient survival for certain diseases.

    Oh la laClose

    Your session has expired but don’t worry, your message
    has been saved.Please log in and we’ll bring you back
    to this page. You’ll just need to click “Send”.

    Your evaluation is of great value to our authors and readers. Many thanks for your time.

    Review Close

    Short review
    Select a comment
    Select a grade
    You and the author
    Anonymity My review is anonymous( Log in  or  Register )
    publish
    Close

    When you're done, click "publish"

    Only blue fields are mandatory.

    Relation to the author*
    Overall Comment*
    Anonymity* My review is anonymous( Log in  or  Register )
     

    Focus & Objectives*

    Have the objectives and the central topic been clearly introduced?

    Novelty & Originality*

    Do you consider this work to be an interesting contribution to knowledge?

    Arrangement, Transition and Logic

    Are the different sections of this work well arranged and distributed?

    Methodology & Results

    Is the author's methodology relevant to both the objectives and the results?

    Data Settings & Figures

    Were tables and figures appropriate and well conceived?

    References and bibliography

    Is this work well documented and has the bibliography been properly established?

    Writing

    Is this work well written, checked and edited?

    Write Your Review (you can paste text as well)
    Please be civil and constructive. Thank you.


    Grade (optional, N/A by default)

    N/A 1 1.5 2 2.5 3 3.5 4 4.5 5 5.5 6 6.5 7 7.5 8 8.5 9 9.5 10
    Close

    Your mailing list is currently empty.
    It will build up as you send messages
    and links to your peers.

     No one besides you has access to this list.
    Close
    Enter the e-mail addresses of your recipients in the box below.  Note: Peer Evaluation will NOT store these email addresses   log in
    Your recipients

    Your message:

    Your email : Your email address will not be stored or shared with others.

    Your message has been sent.

    Description

    Title : Selection of patient samples and genes for outcome prediction.
    Author(s) : Huiqing Liu, Jinyan Li, Limsoon Wong
    Abstract : Gene expression profiles with clinical outcome data enable monitoring of disease progression and prediction of patient survival at the molecular level. We present a new computational method for outcome prediction. Our idea is to use an informative subset of original training samples. This subset consists of only short-term survivors who died within a short period and long-term survivors who were still alive after a long follow-up time. These extreme training samples yield a clear platform to identify genes whose expression is related to survival. To find relevant genes, we combine two feature selection methods - entropy measure and Wilcoxon rank sum test - so that a set of sharp discriminating features are identified. The selected training samples and genes are then integrated by a support vector machine to build a prediction model, by which each validation sample is assigned a survival/relapse risk score for drawing Kaplan-Meier survival curves. We apply this method to two data sets: diffuse large-B-cell lymphoma (DLBCL) and primary lung adenocarcinoma. In both cases, patients in high and low risk groups stratified by our risk scores are clearly distinguishable. We also compare our risk scores to some clinical factors, such as International Prognostic Index score for DLBCL analysis and tumor stage information for lung adenocarcinoma. Our results indicate that gene expression profiles combined with carefully chosen learning algorithms can predict patient survival for certain diseases.
    Subject : unspecified
    Area : Other
    Language : English
    Year : 2004

    Affiliations Dept of Computer Science, National University of Singapore
    Journal : Proceedings IEEE Computational Systems Bioinformatics Conference
    Issue : Csb
    Pages : 382-392
    Url : http://www.ncbi.nlm.nih.gov/pubmed/16448031

    Leave a comment

    This contribution has not been reviewed yet. review?

    You may receive the Trusted member label after :

    • Reviewing 10 uploads, whatever the media type.
    • Being trusted by 10 peers.
    • If you are blocked by 10 peers the "Trust label" will be suspended from your page. We encourage you to contact the administrator to contest the suspension.

    Does this seem fair to you? Please make your suggestions.

    Please select an affiliation to sign your evaluation:

    Cancel Evaluation Save

    Please select an affiliation:

    Cancel   Save

    Limsoon's Peer Evaluation activity

    Downloads 14
    Views 63

    Limsoon has...

    Trusted 0
    Reviewed 0
    Emailed 0
    Shared/re-used 0
    Discussed 0
    Invited 0
    Collected 0
    Invite this peer to...
    Title
    Start date (dd/mm/aaaa)
    Location
    URL
    Message
    send
    Close

    Full Text request

    Your request will be sent.

    Please enter your email address to be notified
    when this article becomes available

    Your email


     
    Your email address will not be shared or spammed.