[Colloquium] REMINDER: 4/7 Research at TTIC: Hammad Naveed, TTIC

Fri Apr 7 11:00:40 CDT 2017

When:     Friday, April 7th at noon

Where:    TTIC, 6045 S Kenwood Avenue, 5th Floor, Room 526

Who:       Hammad Naveed; TTIC

Title: Computational algorithms to model protein-drug interactions and 3d
structures of proteins

Abstract:
The promiscuity of drugs towards protein binding sites and vice versa
hinders our understanding of the metabolism of healthy and diseased states.
The identification of all protein targets is therefore important to
understand a drug’s (side) effects, to reuse and to combine existing drugs.
Current FDA approved kinase inhibitors have significant side-effects, many
of which might be due to the off-targets of these drugs. I will present a
novel computational approach for large-scale discovery of new targets for
existing drugs. For a given drug, I construct the 3D signature of drug
binding sites that captures its promiscuous structural features. I am able
to predict the interaction of six FDA approved kinase inhibitors with its
known targets with a sensitivity of 50% and specificity of 56%. 4 out of
the 5 top predicted targets for Sorafenib were shown to interact with it
using *in vitro* experiments. This method is broadly applicable for the
prediction of protein-drug interactions with several novel applications to
biological research and drug development.

I will also briefly mention my work on computational characterization and
3D structure prediction of beta-barrel membrane proteins and its
implications for nanopore design.

****************************************************************************************

*Research at TTIC Seminar Series*

TTIC is hosting a weekly seminar series presenting the research currently
underway at the Institute. Every week a different TTIC faculty member will
present their research.  The lectures are intended both for students
seeking research topics and adviser, and for the general TTIC and
University of Chicago communities interested in hearing what their
colleagues are up to.

To receive announcements about the seminar series, please subscribe to the
mailing list: https://groups.google.com/a/ttic.edu/group/talks/subscribe

Speaker details can be found at: http://www.ttic.edu/tticseminar.php.

For additional questions, please contact Nathan Srebro at nati at ttic.edu
<mcallester at ttic.edu>

Mary C. Marre
Administrative Assistant
*Toyota Technological Institute*
*6045 S. Kenwood Avenue*
*Room 504*
*Chicago, IL  60637*
*p:(773) 834-1757*
*f: (773) 357-6970*
*mmarre at ttic.edu <mmarre at ttic.edu>*

On Thu, Apr 6, 2017 at 12:51 PM, Mary Marre <mmarre at ttic.edu> wrote:

> When:     Friday, April 7th at noon
>
>
>
> Where:    TTIC, 6045 S Kenwood Avenue, 5th Floor, Room 526
>
>
>
> Who:       Hammad Naveed; TTIC
>
> Title: Computational algorithms to model protein-drug interactions and 3d
> structures of proteins
>
> Abstract:
> The promiscuity of drugs towards protein binding sites and vice versa
> hinders our understanding of the metabolism of healthy and diseased states.
> The identification of all protein targets is therefore important to
> understand a drug’s (side) effects, to reuse and to combine existing drugs.
> Current FDA approved kinase inhibitors have significant side-effects, many
> of which might be due to the off-targets of these drugs. I will present a
> novel computational approach for large-scale discovery of new targets for
> existing drugs. For a given drug, I construct the 3D signature of drug
> binding sites that captures its promiscuous structural features. I am able
> to predict the interaction of six FDA approved kinase inhibitors with its
> known targets with a sensitivity of 50% and specificity of 56%. 4 out of
> the 5 top predicted targets for Sorafenib were shown to interact with it
> using *in vitro* experiments. This method is broadly applicable for the
> prediction of protein-drug interactions with several novel applications to
> biological research and drug development.
>
> I will also briefly mention my work on computational characterization and
> 3D structure prediction of beta-barrel membrane proteins and its
> implications for nanopore design.
>
>
>
> ****************************************************************************************
>
> *Research at TTIC Seminar Series*
>
> TTIC is hosting a weekly seminar series presenting the research currently
> underway at the Institute. Every week a different TTIC faculty member
> will present their research.  The lectures are intended both for students
> seeking research topics and adviser, and for the general TTIC and
> University of Chicago communities interested in hearing what their
> colleagues are up to.
>
> To receive announcements about the seminar series, please subscribe to the
> mailing list: https://groups.google.com/a/ttic.edu/group/talks/subscribe
>
> Speaker details can be found at: http://www.ttic.edu/tticseminar.php.
>
> For additional questions, please contact Nathan Srebro at nati at ttic.edu
> <mcallester at ttic.edu>
>
>
>
>
>
>
> Mary C. Marre
> Administrative Assistant
> *Toyota Technological Institute*
> *6045 S. Kenwood Avenue*
> *Room 504*
> *Chicago, IL  60637*
> *p:(773) 834-1757 <(773)%20834-1757>*
> *f: (773) 357-6970 <(773)%20357-6970>*
> *mmarre at ttic.edu <mmarre at ttic.edu>*
>
> On Fri, Mar 31, 2017 at 10:29 AM, Mary Marre <mmarre at ttic.edu> wrote:
>
>> When:     Friday, April 7th at noon
>>
>>
>>
>> Where:    TTIC, 6045 S Kenwood Avenue, 5th Floor, Room 526
>>
>>
>>
>> Who:       Hammad Naveed; TTIC
>>
>> Title: Computational algorithms to model protein-drug interactions and 3d
>> structures of proteins
>>
>> Abstract:
>> The promiscuity of drugs towards protein binding sites and vice versa
>> hinders our understanding of the metabolism of healthy and diseased states.
>> The identification of all protein targets is therefore important to
>> understand a drug’s (side) effects, to reuse and to combine existing drugs.
>> Current FDA approved kinase inhibitors have significant side-effects, many
>> of which might be due to the off-targets of these drugs. I will present a
>> novel computational approach for large-scale discovery of new targets for
>> existing drugs. For a given drug, I construct the 3D signature of drug
>> binding sites that captures its promiscuous structural features. I am able
>> to predict the interaction of six FDA approved kinase inhibitors with its
>> known targets with a sensitivity of 50% and specificity of 56%. 4 out of
>> the 5 top predicted targets for Sorafenib were shown to interact with it
>> using *in vitro* experiments. This method is broadly applicable for the
>> prediction of protein-drug interactions with several novel applications to
>> biological research and drug development.
>>
>> I will also briefly mention my work on computational characterization and
>> 3D structure prediction of beta-barrel membrane proteins and its
>> implications for nanopore design.
>>
>>
>>
>> ****************************************************************************************
>>
>> *Research at TTIC Seminar Series*
>>
>> TTIC is hosting a weekly seminar series presenting the research currently
>> underway at the Institute. Every week a different TTIC faculty member
>> will present their research.  The lectures are intended both for
>> students seeking research topics and adviser, and for the general TTIC and
>> University of Chicago communities interested in hearing what their
>> colleagues are up to.
>>
>> To receive announcements about the seminar series, please subscribe to
>> the mailing list: https://groups.google.com/a/ttic.edu/group/talks/subsc
>> ribe
>>
>> Speaker details can be found at: http://www.ttic.edu/tticseminar.php.
>>
>> For additional questions, please contact Nathan Srebro at nati at ttic.edu
>> <mcallester at ttic.edu>
>>
>>
>>
>>
>> Mary C. Marre
>> Administrative Assistant
>> *Toyota Technological Institute*
>> *6045 S. Kenwood Avenue*
>> *Room 504*
>> *Chicago, IL  60637*
>> *p:(773) 834-1757 <(773)%20834-1757>*
>> *f: (773) 357-6970 <(773)%20357-6970>*
>> *mmarre at ttic.edu <mmarre at ttic.edu>*
>>
>
>
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