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oncinfo [2022/05/18 17:36] – [How to] adminoncinfo [2024/02/01 21:13] – habil
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   - [[:the_effect_of_cellular_senescence_in_neurodegeneration|The effect of cellular senescence in neurodegeneration ]]   - [[:the_effect_of_cellular_senescence_in_neurodegeneration|The effect of cellular senescence in neurodegeneration ]]
   - [[:rapamycin|Rapamycin effects on aging-associated pathologies]]   - [[:rapamycin|Rapamycin effects on aging-associated pathologies]]
 +  - [[:obesity|Epitranscriptomics of obesity]]
  
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 ===== Current and former lab members ===== ===== Current and former lab members =====
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 {{:wiki:public:20191113_115359-cut.jpg?nolink&2072x1901|20191113_115359-cut.jpg}} {{:wiki:public:20191113_115359-cut.jpg?nolink&2072x1901|20191113_115359-cut.jpg}}
  
-Photos: {{:wiki:public:rahelehl.jpg?linkonly|Raheleh's}} goodbye lunch 2021, [[:lost_maple_2019|Lost Maples 2019]], [[:cave_2017|Cave 2017]]+Photos: Habil and [[https://uthealthsanantonio.zenfolio.com/p206362730|Shiva]] 2022, {{:wiki:public:rahelehl.jpg?linkonly|Raheleh's}}  good bye lunch 2021, [[: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]])+  - [[https://www.uthscsa.edu/academics/biomedical-sciences/profile/zare|Dr. Habil Zare]] (the PI, [[https://www.dropbox.com/scl/fi/x490hnsowipfu1u6v5zwc/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, 2014-2016, Update: Software Developer at Crossvale Inc in Dallas)   - [[:rupesh_agrahari|Rupesh Agrahari]] (graduate student, 2014-2016, Update: Software Developer at Crossvale Inc in Dallas)
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   - [[: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, 2018-2020)   - [[:ghazal_ebrahimi|Ghazal Ebrahimi ]](Volunteer undergraduate student from Sharif University, 2018-2020)
-  - Dr. [[:isha_mehta|Isha Mehta]] (Postdoctoral Associate, 2019-2022, Update: Research Scientist at University of Pittsburgh School of Medicine){{  :wiki:public:skype-20200721-085353.jpeg?direct&170x184|skype-20200721-085353.jpeg}} +  - Dr. [[:isha_mehta|Isha Mehta]] (Postdoctoral Associate, 2019-2022, Update: Research Scientist at the University of Pittsburgh School of Medicine){{  :wiki:public:skype-20200721-085353.jpeg?direct&170x184|skype-20200721-085353.jpeg}} 
-  - Dr. [[:meghan_short|Meghan Short]] (Postdoc Associate 2019-2020, Update: Postdoctoral Associate in [[https://huttenhower.sph.harvard.edu/|Huttenhower]] Lab at the Broad Institute) +  - Dr. [[:meghan_short|Meghan Short]] (Postdoc Associate 2019-2020, Update: Postdoctoral Associate in [[https://huttenhower.sph.harvard.edu/|Huttenhower]] Lab at the Broad Institute, Update: [[https://www.tuftsctsi.org/people/meghan-short/|Statistician]] at Tufts Medical Center) 
-  - [[:shiva_kazempour|Shiva Kazempour]] (Visiting Scientist since 2019) +  - [[:shiva_kazempour|Shiva Kazempour]] (Visiting Scientist 2019-2021 and PhD student since 2022) 
-  - Dr. [[:raheleh_roudi|Raheleh Roudi]] (Visiting Scientist 2020-2021, Update: Postdoctoral Associate in [[https://med.umn.edu/bio/dom-a-z/guisheng-song|Song]] Lab at University of Minnesota Twin Cities)+  - Dr. [[:raheleh_roudi|Raheleh Roudi]] (Visiting Scientist 2020-2021, Postdoctoral Associate in [[https://med.umn.edu/bio/dom-a-z/guisheng-song|Song]] Lab at University of Minnesota Twin Cities, Update [[https://profiles.stanford.edu/raheleh-roudi|2022]]: Research Scientist in the Department of Radiology at Stanford University) 
 +  - Dr. [[:mohsen_sharifitabar|Mohsen Sharifi Tabar]] (Senior Research Scientist since 2022) 
 +  - Mehdi Manshadi (Guest PhD student 2020, [[https://oncinfo.org/_media/wiki:public:mehdi-manshadi-thesis_20230909.pdf|Thesis]]) 
 +  - Alan Shaji & Mia Wallace (High school students in the 2022 Northside summer [[https://pipettegazette.uthscsa.edu/2017/08/11/a-window-into-science-northside-isd-summer-mentorship-program/|program]]) 
 +  - Dr. [[:sogand_sajedi|Sogand Sajedi]] (Postdoc Associate 2022, Update: Postdoctoral Associate at the MD Amderson)
  
 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. 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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 2.030V, UT Health San Antonio, 7703 Floyd Curl Drive, San Antonio, TX 78229 2.030V, UT Health San Antonio, 7703 Floyd Curl Drive, San Antonio, TX 78229
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-===== Open positions ===== 
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-Research assistantship and postdoctoral opportunities are available in the Oncinfo Lab. See the [[https://jobs.sciencecareers.org/job/486328/research-positions-in-computational-biology-at-all-levels-postdoctoral-phd-and-ms-students/?TrackID=148656|2018]] [{{:wiki:public:recruit_oncinfo_2018.pdf|pdf]}}  and [[https://jobs.sciencecareers.org/job/498929/computational-biologist-interested-in-neurodegenerative-disorders-and-cancer-research/?TrackID=9|2019]] [{{:wiki:public:approved.pdf|pdf}}  ] advertisements for more details on the postdoctoral position, and also if you are interested in joining the lab as a graduate student. PhD applicants must be strong in machine learning and knowledgeable in molecular biology to be successful in multidisciplinary research as illustrated in our exemplar[[:machine_learning_and_molecular_biology_requirements| papers]]. Even if the application deadline is passed, strong applicants with a masters degree may start //immediately//  as a visiting scientist with possibility of joining the PhD program within a year. There are also some opportunities to apply for postdoctoral fellowship [[:postdoctorial_fellowship_awards|awards]]. Experienced postdocs can be promoted to an Instructor and then a Research Assistant Professor position. Taking an [[:r_test|R test]] is essential in the interview process. Also, be prepared to play [[https://www.google.com/search?q=minesweeper&oq=min&aqs=chrome.0.69i59j69i57j69i59j69i60l2j69i61j69i65l2.874j0j7&sourceid=chrome&ie=UTF-8|Minesweeper]] during the interview. 
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-===== Computational resources ===== 
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-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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-===== Educational services ===== 
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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?" 
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-- 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]]. 
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