QuBi/QuBi-News: Difference between revisions

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==Summer Research Positions (Summer 2016)==
==Research Positions (Summer 2016)==
===Hunter-MSKCC Joint Summer Internship Program in Bioinformatics===
===Hunter-MSKCC Summer Internship Program in Microbial Genomics===
* Position: Bioinformatics Research Assistants
* '''Title''': Bioinformatics Research Assistant
* Number of positions: Two
* '''Number of positions''': Two
* PIs: Dr Weigang Qiu (Hunter) & Dr Joao Xavier (MSKCC)
* '''Supervisors''': Dr Weigang Qiu (Hunter) & Dr Joao Xavier (MSKCC)
* Location: Belfer Research Building
* '''Location''': Belfer Research Building, 413, East 69 Street, New York, NY 10021
* Dates: June 1 - July 13, 2016 (6 weeks)
* '''Dates''': June 1 - July 13, 2016 (6 weeks)
* Hours: 18 hours a week
* '''Weekly Hours''': 18 hours a week (Three 6-hour work days)
* Stipend: $2,500 per position  
* '''Stipend''': $2,100 per position
* Project: Identification of genomic determinants of phenotypic evolution in ''Pseudomonas aeruginosa''
* '''Project Title''': Identification of genomic determinants of phenotypic evolution in ''Pseudomonas aeruginosa''
* Project description:
* '''Project Description''': We have previously sequenced the entire genomes of 20 hospital isolates of ''P. aeruginosa'' and measured their phenotypes including antibiotic resistance, biofilm formation, and swarming motility. An algorithm has been developed to identify genetic variations associated with these phenotypes. The objective of the summer project is to design computational methods to validate the effectiveness of the genotype-phenotype mapping algorithm. Our approach would be to design and implement algorithms to simulate the evolution of traits in bacterial populations.
* Minimum Qualifications:
* '''Minimum Qualifications''':
* Background/Reference:
** Familiar with the LINUX Operating System (e.g., Hunter CS 132)
* Application process:
** Fluency with one programming language (Perl/BioPerl, Python/BioPython, or C++) (e.g., Hunter BIOL 425)
** Email to make an appointment to see Dr Qiu during his office hours on Wed 5-7pm (or other dates & hours by appointment)
** B or better grade in a molecular genetics course (e.g., Hunter BIOL 203)
** Come for a brief interview
* '''Background Reading''': [http://www.ncbi.nlm.nih.gov/pubmed/23954787 Convergent evolution of hyperswarming leads to impaired biofilm formation in pathogenic bacteria]
* '''Application Contact''': Email Dr Qiu (weigang@genectr.hunter.cuny.edu) for an interview during his office hours on Wed 5-7pm (or other dates & hours by appointment)


===Bioinformatics Research Assistant===
===Bioinformatics Research Assistant===
* PI: Dr Weigang Qiu
* '''Title''': Bioinformatics Research Assistant
* Location: Belfer Research Building
* '''Number of positions''': One
* Dates: June 1 - July 13, 2016 (6 weeks)
* '''Supervisor''': Dr Weigang Qiu (Hunter)
* Hours & Stipend: 18 hours a week, $20/hour (total $2,160)
* '''Location''': Belfer Research Building, 413, East 69 Street, New York, NY 10021
* Project:
* '''Dates''': June 1 - July 13, 2016 (6 weeks)
* Project description:
* '''Weekly Hours''': 18 hours a week (Three 6-hour work days)
* Minimum Qualifications:
* '''Stipend''': $2,100 per position
===Bioinformatics Research Assistant===
* '''Project Title''': Comparative genomics of Lyme disease pathogen ''Borrelia burgdorferi sensu lato''
* PI: Dr Weigang Qiu
* '''Project Description''': We have previously sequenced the entire genomes of over 20 isolates of ''B. burgdorferi'', with the goal of identifying genomic variations associated with adaptation. The summer project will focus on identification of conserved codons, functional prediction of ''Borrelia'' genes, and reconstruction of plasmid evolution
* Location: Belfer Research Building
* '''Minimum Qualifications''':
* Dates: June 1 - July 13, 2016 (6 weeks)
** Familiar with the LINUX Operating System (e.g., Hunter CS 132)
* Hours & Stipend: 18 hours a week, $20/hour (total $2,160)  
** Fluency with one programming language (Perl/BioPerl, Python/BioPython, or C++) (e.g., Hunter BIOL 425)
* Project:
** B or better grade in a molecular genetics course (e.g., Hunter BIOL 203)
* Project description:
* '''Background Reading''':  
* Minimum Qualifications:
** [http://borreliabase.org a Borrelia genome browser]
** [http://www.ncbi.nlm.nih.gov/pubmed/24994456 Accompanying publication]
* '''Application Contact''': Email Dr Qiu (weigang@genectr.hunter.cuny.edu) for an interview during his office hours on Wed 5-7pm (or other dates & hours by appointment)


==QuBi News Letters==
==QuBi News Letters==
* QuBi News, Spring 2016
* QuBi News, Spring 2016
* QuBi News, Spring 2015
* QuBi News, Spring 2015: [[File:QuBi-Newsletter-Spring-2015.pdf|thumbnail]]

Latest revision as of 14:05, 23 April 2016

Research Positions (Summer 2016)

Hunter-MSKCC Summer Internship Program in Microbial Genomics

  • Title: Bioinformatics Research Assistant
  • Number of positions: Two
  • Supervisors: Dr Weigang Qiu (Hunter) & Dr Joao Xavier (MSKCC)
  • Location: Belfer Research Building, 413, East 69 Street, New York, NY 10021
  • Dates: June 1 - July 13, 2016 (6 weeks)
  • Weekly Hours: 18 hours a week (Three 6-hour work days)
  • Stipend: $2,100 per position
  • Project Title: Identification of genomic determinants of phenotypic evolution in Pseudomonas aeruginosa
  • Project Description: We have previously sequenced the entire genomes of 20 hospital isolates of P. aeruginosa and measured their phenotypes including antibiotic resistance, biofilm formation, and swarming motility. An algorithm has been developed to identify genetic variations associated with these phenotypes. The objective of the summer project is to design computational methods to validate the effectiveness of the genotype-phenotype mapping algorithm. Our approach would be to design and implement algorithms to simulate the evolution of traits in bacterial populations.
  • Minimum Qualifications:
    • Familiar with the LINUX Operating System (e.g., Hunter CS 132)
    • Fluency with one programming language (Perl/BioPerl, Python/BioPython, or C++) (e.g., Hunter BIOL 425)
    • B or better grade in a molecular genetics course (e.g., Hunter BIOL 203)
  • Background Reading: Convergent evolution of hyperswarming leads to impaired biofilm formation in pathogenic bacteria
  • Application Contact: Email Dr Qiu (weigang@genectr.hunter.cuny.edu) for an interview during his office hours on Wed 5-7pm (or other dates & hours by appointment)

Bioinformatics Research Assistant

  • Title: Bioinformatics Research Assistant
  • Number of positions: One
  • Supervisor: Dr Weigang Qiu (Hunter)
  • Location: Belfer Research Building, 413, East 69 Street, New York, NY 10021
  • Dates: June 1 - July 13, 2016 (6 weeks)
  • Weekly Hours: 18 hours a week (Three 6-hour work days)
  • Stipend: $2,100 per position
  • Project Title: Comparative genomics of Lyme disease pathogen Borrelia burgdorferi sensu lato
  • Project Description: We have previously sequenced the entire genomes of over 20 isolates of B. burgdorferi, with the goal of identifying genomic variations associated with adaptation. The summer project will focus on identification of conserved codons, functional prediction of Borrelia genes, and reconstruction of plasmid evolution
  • Minimum Qualifications:
    • Familiar with the LINUX Operating System (e.g., Hunter CS 132)
    • Fluency with one programming language (Perl/BioPerl, Python/BioPython, or C++) (e.g., Hunter BIOL 425)
    • B or better grade in a molecular genetics course (e.g., Hunter BIOL 203)
  • Background Reading:
  • Application Contact: Email Dr Qiu (weigang@genectr.hunter.cuny.edu) for an interview during his office hours on Wed 5-7pm (or other dates & hours by appointment)

QuBi News Letters

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