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oncinfo [2019/10/21 18:00] – [Educational services] adminoncinfo [2020/07/21 14:15] – [Current and former lab members] admin
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   - [[:clonal_decomposition|Clonal decomposition]]   - [[:clonal_decomposition|Clonal decomposition]]
   - [[:hepatocellular_carcinoma|Hepatocellular carcinoma]]   - [[:hepatocellular_carcinoma|Hepatocellular carcinoma]]
-  - [[:molecular_mechanisms_ofalzheimers_disease|Molecular mechanisms of Alzheimer's disease]]+  -  [[:molecular_mechanisms_ofalzheimers_disease|Molecular mechanisms of Alzheimer's disease]] 
 +      - [[:somatic_insertions_of_transposons_in_tauopathies|Somatic insertions of transposons in tauopathies]]
   - [[:genome_evolution|Genome evolution]]   - [[:genome_evolution|Genome evolution]]
   - [[:multiomics_analysis_for_dementia|Multiomics analysis for dementia]]   - [[:multiomics_analysis_for_dementia|Multiomics analysis for dementia]]
-  - [[:Rapamycin|Rapamycin effects on aging-associated pathologies]]+  - [[:serum_biomarkers_for_neurodegeneration|Serum biomarkers for neurodegeneration ]] 
 +  - [[:rapamycin|Rapamycin effects on aging-associated pathologies]]
  
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 ===== Current and former lab members ===== ===== Current and former lab members =====
  
-{{:wiki:public:cave2017.jpg?direct&600|cave2017.jpg}}[[:cave_2017|Cave 2017]]+{{:wiki:public:20191113_115359-cut.jpg?nolink&2072x1901|20191113_115359-cut.jpg}}
  
-  - [[https://www.uthscsa.edu/academics/biomedical-sciences/faculty/profile/65296/Zare,-Habil|Dr. Habil Zare]] (the PI, {{:wiki:public:cv_habil_zare_1.pdf|CV}}, lab [[:habils_lab_notebook|notebook]])+Photos: [[:lost_maple_2019|Lost Maples 2019]], [[:cave_2017|Cave 2017]] 
 + 
 +  - [[https://www.uthscsa.edu/academics/biomedical-sciences/faculty/profile/65296/Zare,-Habil|Dr. Habil Zare]] (the PI, {{:wiki:public:cv_habil_zare.pdf|CV}}, lab [[:habils_lab_notebook|notebook]])
   - [[:shuvabrata_saha|Shuvabrata Saha]] (graduate student, left in 2014)   - [[:shuvabrata_saha|Shuvabrata Saha]] (graduate student, left in 2014)
   - [[:rupesh_agrahari|Rupesh Agrahari]] (graduate student, graduated in 2016, Update: Software Developer at Crossvale Inc in Dallas)   - [[:rupesh_agrahari|Rupesh Agrahari]] (graduate student, graduated in 2016, Update: Software Developer at Crossvale Inc in Dallas)
-  - [[:amir_foroushani|Amir Foroushani]] (Postdoctoral Associate until 2016, Update: Computer Scientist at [[http://www.niaid.nih.gov/labsandresources/labs/aboutlabs/li/iiu/pages/default.aspx?wt.ac=bcIiu|Laboratory of Immunology]], NIAID, NIH)+  - Dr. [[:amir_foroushani|Amir Foroushani]] (Postdoctoral Associate until 2016, Update: Computer Scientist at [[http://www.niaid.nih.gov/labsandresources/labs/aboutlabs/li/iiu/pages/default.aspx?wt.ac=bcIiu|Laboratory of Immunology]], NIAID, NIH)
   - Vignesh Kuppa (volunteer graduate student, left in 2015)   - Vignesh Kuppa (volunteer graduate student, left in 2015)
   - [[:jessica_zavadil|Jessica Zavadil]] (MD/PhD student in Dr. Christi Walter's lab at UTHSCSA, graduated in 2016)   - [[:jessica_zavadil|Jessica Zavadil]] (MD/PhD student in Dr. Christi Walter's lab at UTHSCSA, graduated in 2016)
   - [[:aamirzainulabadeen|Aamir ]][[:aamirzainulabadeen|Zainulabadeen]] (Visiting undergraduate student in summers 2016 and 2017 from Princeton University)   - [[:aamirzainulabadeen|Aamir ]][[:aamirzainulabadeen|Zainulabadeen]] (Visiting undergraduate student in summers 2016 and 2017 from Princeton University)
-  - [[:philip_yao|Philip Yao]] (Visiting undergraduate student in summer 2016 from the University of Michigan)+  - [[:philip_yao|Philip Yao]] (Visiting undergraduate student in summer 2016 from the University of Michigan, software engineer at Amazon)
   - [[:hanie_samimi|Hanie Samimi]] (graduate student, graduated in 2018. Update: PhD student at Texas State University)   - [[:hanie_samimi|Hanie Samimi]] (graduate student, graduated in 2018. Update: PhD student at Texas State University)
   - [[:bryan_shaw|Bryan Shaw]] (graduate student, left in 2017)   - [[:bryan_shaw|Bryan Shaw]] (graduate student, left in 2017)
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   - [[:angela_zhang|Angela Zhang]] (2017 Summer Camp high school student)   - [[:angela_zhang|Angela Zhang]] (2017 Summer Camp high school student)
   - [[:shilpita_mitra-behura|Shilpita Mitra-Behura]] (2017 Summer Camp high school student)   - [[:shilpita_mitra-behura|Shilpita Mitra-Behura]] (2017 Summer Camp high school student)
-  - [[:ghazal_ebrahimi|Ghazal Ebrahimi ]](Volunteer undergraduate student from Sharif University) +  - [[:ghazal_ebrahimi|Ghazal Ebrahimi ]](Volunteer undergraduate student from Sharif University since 2018) 
-  - [[:isha_mehta|Isha Mehta]] (Postdoctoral Associate) +  - Dr. [[:isha_mehta|Isha Mehta]] (Postdoctoral Associate, since 2019) 
-  - [[:meghan_short|Meghan Short]] (Guest postdoc)+  - Dr. [[:meghan_short|Meghan Short]] (Postdoc Associate since 2019)
   - [[:shiva_kazempour|Shiva Kazempour]] (Visiting Scientist since 2019).   - [[:shiva_kazempour|Shiva Kazempour]] (Visiting Scientist since 2019).
 +  - Dr. [[:raheleh_roudi|Raheleh Roudi]] (Visiting Scientist since 2020).
 +
 +| |To help [[https://www.livescience.com/coronavirus-flatten-the-curve.html|flatten]] the COVID-19 curve, we have been working from home since mid March 2020. [[https://docs.google.com/document/d/1iCLinpkdAGRsRW_1u_QrPKbcc77_1Kl0CgdGP5UfKjI/edit#|This]] is the full list of the things we do to increase efficiency and to maintain mental health when working from home.|
  
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 ===== Computational resources ===== ===== Computational resources =====
  
-To run our //in silico// experiments, we use several [[https://docs.google.com/document/d/1vP0MSHRQ9oMjnv02eiqrOY0cs0WaVxp5dyLjiWtSzrQ/edit|resources]] provided by The Texas Advanced Computing Center ([[https://www.tacc.utexas.edu/|TACC]]) e.g., [[https://www.tacc.utexas.edu/systems/lonestar|Lonestar]] , which is a computing system with over 30,00 cores, and [[https://www.tacc.utexas.edu/systems/stampede|Stampede]], which is one of the 10 top supercomputers in the world with 10 petaFLOPS dedicated to scientific research. We have also access to NSF-supported ​[[https://portal.xsede.org|XSEDE]] recourses including [[https://portal.xsede.org/jetstream|Jetstream]].+To run our //in silico// experiments, we use several [[https://docs.google.com/document/d/1vP0MSHRQ9oMjnv02eiqrOY0cs0WaVxp5dyLjiWtSzrQ/edit|resources]] provided by The Texas Advanced Computing Center ([[https://www.tacc.utexas.edu/|TACC]]) e.g., [[https://www.tacc.utexas.edu/systems/lonestar|Lonestar]] , which is a computing system with over 30,00 cores, and [[https://www.tacc.utexas.edu/systems/stampede|Stampede]], which is one of the 10 top supercomputers in the world with 10 petaFLOPS dedicated to scientific research. Secure HEPA compliant resources at TACC include [[https://www.tacc.utexas.edu/systems/hikari|Hikari]], which has 10K cores and is connected to [[https://www.tacc.utexas.edu/systems/corral|Corral]] with a capacity of 15 PBs. We have also access to NSF-supported ​[[https://portal.xsede.org|XSEDE]] recourses including [[https://portal.xsede.org/jetstream|Jetstream]].
  
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 - The "[[:bioinformatics_for_biologist_workshop|Bioinformatics for biologist workshop]]" is a practical introduction to some basic bioinformatics tools for audience with little computational skills. Slides are available from the workshop page. Additional resources are listed at "How to begin [[:how_to|learning]] bioinformatics?" - The "[[:bioinformatics_for_biologist_workshop|Bioinformatics for biologist workshop]]" is a practical introduction to some basic bioinformatics tools for audience with little computational skills. Slides are available from the workshop page. Additional resources are listed at "How to begin [[:how_to|learning]] bioinformatics?"
  
-- The [[https://docs.google.com/presentation/d/1El0rxBw8lRBCf0nhqLqaXBOTWE20o1G7k4huXX150Wo/edit#slide=id.g63f2c216dd_0_0|Slides]] and the R {{:wiki:public:pigengene_doc.zip|script}}  for Habil's hands-on in the 2019 Neurepiomics [[https://biggsinstitute.org/events/neurepiomics/|Course]].+- The [[https://docs.google.com/presentation/d/1El0rxBw8lRBCf0nhqLqaXBOTWE20o1G7k4huXX150Wo/edit#slide=id.g63f2c216dd_0_0|Slides]] for Habil's hands-on workshop in the 2019 Neurepiomics [[https://biggsinstitute.org/events/neurepiomics/|Course]].