[Chicago] 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

Mon Jan 5 06:43:53 CET 2015

Thomas,

I wish I was closer to yo and set up with skpe and yur veiwer programs for
counting.  I am retired so might could be of some help.  Certainl keep me
on your list if you do not find who you need.  May I also pass your needs
to our opengov hack group and ITKAN group?

On Sat, Jan 3, 2015 at 9:39 PM, thomas hahn <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
> 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/*
> <http://www.radishmedical.com/thomas-hahn/>*) *
>
>
>
> *Primary email: **Thomas.F.Hahn2 at gmail.com* <Thomas.F.Hahn2 at gmail.com>
>
> *Cell phone: 318 243 3940 <318%20243%203940>*
>
> *Office phone: 501 682 1440 <501%20682%201440>*
>
> *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* <Thomas.F.Hahn2 at gmail.com>*), even when having
> no cell phone reception, e.g. in big massive buildings:  *(501) 301-4890
> <%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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