[TriZPUG] Help with finding tutors for Python, Linux, R, Perl, Octave, MATLAB and/or Cytoscape for yeast microarray analysis, next generation sequencing and constructing gene interaction networks

Sun Jan 4 21:50:05 CET 2015

Hi, Suzy. Thomas is not subscribed to this list. He asked below for a 
reply to Thomas.F.Hahn2 at gmail.com.

Cheers, Chris

On 1/4/2015 11:45 AM, Suzy Stiegelmeyer wrote:
> Hi Thomas,
> I’m a Computational Biologist who works at Syngenta.  I have experience
> with most of the packages and technologies you mention.  I don’t have
> much tutoring experience but I’m willing to help.  However, since I work
> full time I’m only available evening and weekend hours.  I’m also in
> North Carolina.  Let me know if you think that could work for you and we
> could have a Skype call to further this conversation.
> Best regards and Happy New Year,
> Suzy Stiegelmeyer
>
>
> On Jan 4, 2015, at 12:02 AM, thomas hahn <thomas.f.hahn2 at gmail.com
> <mailto:thomas.f.hahn2 at gmail.com>> wrote:
>
>> *_Help with finding tutors for Python, Linux, R, Perl, Octave, MATLAB
>> and/or Cytoscape for yeast microarray analysis, next generation
>> sequencing and constructing gene interaction networks_*
>>
>> Hi
>>
>> I am a visually impaired bioinformatics graduate student using
>> microarray data for my master’s thesis aimed at deciphering the
>> mechanism by which the yeast wild type can suppress the rise of free
>> reactive oxygen species (ROS) induced by caloric restriction (CR) but
>> the Atg15 and Erg6 knockout mutant cannot.
>>
>> Since my remaining vision is very limited I need very high
>> magnification.  But that makes my visual field very small.  Therefore
>> I need somebody to teach me how to use these programming environments,
>> especially for microarray analysis, next generation sequencing and
>> constructing gene and pathway interaction networks.This is very
>> difficult for me to figure out without assistance because Zoomtext, my
>> magnification and text to speech software, on which I am depending
>> because I am almost blind, has problems reading out aloud many
>> programming related websites to me.And even those websites it can
>> read, it can only read sequentially from left to right and then from
>> top to bottom.Unfortunately, this way of acquiring, finding, selecting
>> and processing new information and answering questions is too
>> tiresome, exhausting, ineffective and especially way too time
>> consuming for graduating with a PhD in bioinformatics before my
>> funding runs out despite being severely limited by my visual
>> disability.I would also need help with writing a good literature
>> review and applying the described techniques to my own yeast
>> Affimetrix microarray dataset because I cannot see well enough to find
>> all relevant publications on my own.
>>
>> Some examples for specific tasks I urgently need help with are:
>>
>> 1.Analyzing and comparing the three publically available microarray
>> datasets that can be accessed at:
>> A.http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE41860
>> B.http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE38635
>> C.http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9217
>>
>> 2.Learning how to use the Affymetrics microarray analysis software for
>> the Yeast 2 chip, which can be found at
>> http://www.affymetrix.com/support/technical/libraryfilesmain.affx
>>
>> 3.For Cytoscape I need somebody, who can teach me how to execute the
>> tutorials at the following links because due to my very limited vision
>> field I cannot see tutorial and program interface simultaneously.
>> A.http://opentutorials.cgl.ucsf.edu/index.php/Tutorial:Introduction_to_Cytoscape_3.1-part2#Importing_and_Exploring_Your_Data
>>
>> B.http://opentutorials.cgl.ucsf.edu/index.php/Tutorial:Filtering_and_Editing_in_Cytoscape_3
>> C.http://cytoscape.org/manual/Cytoscape2_8Manual.html#Import%20Fixed-Format%20Network%20Files
>> D.http://wiki.cytoscape.org/Cytoscape_User_Manual/Network_Formats
>>
>> 4.Learning how to use the TopGo R package to perform statistical
>> analysis on GO enrichments.
>>
>> Since I am legally blind the rehab agency is giving me money to pay
>> tutors for this purpose.  Could you please help me getting in touch
>> regarding this with anybody, who could potentially be interested in
>> teaching me one on one thus saving me time for acquiring new
>> information and skills, which I need to finish my thesis on time, so
>> that I can remain eligible for funding to continue in my
>> bioinformatics PhD program despite being almost blind? The tutoring
>> can be done remotely via TeamViewer 5 and Skype.  Hence, it does not
>> matter where my tutors are physically located.  Currently I have
>> tutors in Croatia and UK.  But since they both work full time jobs
>> while working on their PhD dissertation they only have very limited
>> time to teach me online.Could you therefore please forward this
>> request for help to anybody, who could potentially be interested or,
>> who could connect me to somebody, who might be, because my graduation
>> and career depend on it?Who else would you recommend me to contact
>> regarding this? Where else could I post this because I am in urgent
>> need for help?
>>
>> Could you please contact me directly via email at
>> Thomas.F.Hahn2 at gmail.com <mailto:Thomas.F.Hahn2 at gmail.com> and/or
>> Skype at tfh002 because my text to speech software has problems to
>> read out this website aloud to me?
>>
>> I thank you very much in advance for your thoughts, ideas,
>> suggestions, recommendations, time, help, efforts and support.
>>
>> With very warm regards,
>>
>> *Thomas Hahn*
>>
>> 1)*Graduate student in the Joint Bioinformatics Program at the
>> University of Arkansas at Little Rock (UALR) and the University of
>> Arkansas Medical Sciences (UAMS) &*
>>
>> 2)*Research & Industry Advocate, Founder and Board Member of RADISH
>> MEDICAL SOLUTIONS, INC. (**http://www.radishmedical.com/thomas-hahn/**) *
>>
>> **
>> *Primary email:
>> **Thomas.F.Hahn2 at gmail.com*<mailto:Thomas.F.Hahn2 at gmail.com>**
>> *Cell phone: 318 243 3940*
>> *Office phone: 501 682 1440*
>> *Office location: EIT 535*
>> *Skype ID: tfh002*
>> *Virtual Google Voice phone to reach me while logged into my email
>> (i.e. **Thomas.F.Hahn2 at gmail.com*<mailto:Thomas.F.Hahn2 at gmail.com>*),
>> even when having no cell phone reception, e.g. in big massive
>> buildings:*(501) 301-4890<tel:%28501%29%20301-4890>**
>>
>> *_Web links: _*
>>
>> 1)https://ualr.academia.edu/ThomasHahn
>> 2)https://www.linkedin.com/pub/thomas-hahn/42/b29/42
>> 3)http://facebook.com/Thomas.F.Hahn
>> <https://www.facebook.com/Thomas.F.Hahn>
>> 4)https://twitter.com/Thomas_F_Hahn
>>
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>
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-- 
Sincerely,

Chris Calloway, Applications Analyst
UNC Renaissance Computing Institute
100 Europa Drive, Suite 540, Chapel Hill, NC 27517
(919) 599-3530