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<strong>Welcome to Dr Weigang Qiu's Lab Wiki</strong>
<strong>Welcome to Dr Weigang Qiu's Lab Wiki</strong>


Weigang Qiu, Ph.D., Professor<nowiki><br></nowiki>Department of Biological Sciences<nowiki><br></nowiki>Hunter College of City University of New York<nowiki><br></nowiki>Belfer Research Building, Room 402<nowiki><br></nowiki>413 East  69th Street, New York, NY 10021<nowiki><br></nowiki>Office: 1-212-896-0445
Location:
 
Weigang Qiu, Ph.D., Professor<br>
Department of Biological Sciences<br>
Hunter College of City University of New York<br>
Belfer Research Building, Room 402<br>
413 East  69th Street, New York, NY 10021<br>
Office: 1-212-896-0445
Email: wqiu-at-(hunter.cuny.edu)


== Lab Resources ==
== Lab Resources ==
* [[Mini-Tutorals|Mini-Protocols]] (frequently used computer codes and pipelines)
* [[Mini-Tutorals|Mini-Protocols]] (frequently used computer codes and pipelines)
* [[Monte Carlo Club]] (summer projects)
* [[Monte Carlo Club]] (summer projects)
== Lab publications ==
* Lyme genomics (updated on Jan 2023)
** Li, Li; Di, Lia; Zeglis, Brian M.; Qiu, Weigang. 2022. “Evolution of the ''vls'' antigenic variability locus of the Lyme Disease pathogen and development of recombinant monoclonal antibodies targeting conserved VlsE epitopes”. Microbial Spectrum 10 (5):1-15. DOI: https://doi.org/10.1128/spectrum.01743-22
** Di, Lia; Akther, Saymon; Bezrucenkovas, Edgaras; Ivanova, Larisa; Sulkow, Brian; Wu, Bing; Mneimneh, Saad; Gomes-Solecki, Maria; Qiu, Wei-Gang. 2021. "Maximum antigen diversification in a lyme bacterial population and evolutionary strategies to overcome pathogen diversity". The ISME Journal. 16, 447-464. DOI:10.1038/s41396-021-01089-4
** Schwartz, Ira; Margos, Gabriele; Casjens, Sherwood R.; Qiu, Wei-Gang; Eggers, Christian H. 2020. "Multipartite Genome of Lyme Disease Borrelia: Structure, Variation and Prophages". Current Issues in Molecular Biology. 42:409-454.DOI: https://doi.org/10.21775/9781913652616.
** Barbour, A. G. and Qiu, W. (2019). ''Borreliella''. In Bergey's Manual of Systematics of Archaea and Bacteria (eds W. B. Whitman, F. Rainey, P. Kämpfer, M. Trujillo, J. Chun, P. DeVos, B. Hedlund and S. Dedysh). John Wiley & Sons, Inc., in association with Bergey's Manual Trust. DOI:10.1002/9781118960608.gbm01525
* Evolution & Learning
** Ely, B.; Koh, W.; Ho, E.; Hassan, T.M.; Pham, A.V.; Qiu, W. (2023). Novelty Search Promotes Antigenic Diversity in Microbial Pathogens. Pathogens 12:388. https:// doi.org/10.3390/pathogens12030388
** Attie O, Sulkow B, Di C, Qiu W (2019). Genetic codes optimized as a traveling salesman problem. PLoS ONE 14(10): e0224552. https://doi.org/10.1371/journal.pone.0224552
* Informatics tool development
** Hernandez Y, Bernstein R, Pagan P, Vargas, L, McCaig W, Ramrattan G, Akther S, Larracuente A, Di L, Vieira FG, Qiu WG*. 2018. BbWrapper: BioPerl-based sequence and tree utilities for rapid prototyping of bioinformatics pipelines. BMC Bioinformatics 19(1):76. [PMID: 29499649]
** Lia Di, Pedro E Pagan, Daniel Packer, Che L Martin, Saymon Akther, Girish Ramrattan, Emmanuel F Mongodin, Claire M Fraser, Steven E Schutzer, Benjamin J Luft, Sherwood R Casjens and Wei-Gang Qiu*. 2014. BorreliaBase: a phylogeny-centered browser of Borrelia genomes. BMC Bioinformatics 15:233. [PMID 24994456]
* [http://scholar.google.com/citations?hl=en&user=Ds6u39QAAAAJ) Publication List (on Google Scholar)]
* [http://www.ncbi.nlm.nih.gov/sites/myncbi/weigang.qiu.1/bibliography/42770924/public/ NCBI Bibliography]


== Getting started ==
== Getting started ==

Revision as of 17:13, 20 March 2023

Welcome to Dr Weigang Qiu's Lab Wiki

Location:

Weigang Qiu, Ph.D., Professor
Department of Biological Sciences
Hunter College of City University of New York
Belfer Research Building, Room 402
413 East  69th Street, New York, NY 10021
Office: 1-212-896-0445 Email: wqiu-at-(hunter.cuny.edu)

Lab Resources

Lab publications

  • Lyme genomics (updated on Jan 2023)
    • Li, Li; Di, Lia; Zeglis, Brian M.; Qiu, Weigang. 2022. “Evolution of the vls antigenic variability locus of the Lyme Disease pathogen and development of recombinant monoclonal antibodies targeting conserved VlsE epitopes”. Microbial Spectrum 10 (5):1-15. DOI: https://doi.org/10.1128/spectrum.01743-22
    • Di, Lia; Akther, Saymon; Bezrucenkovas, Edgaras; Ivanova, Larisa; Sulkow, Brian; Wu, Bing; Mneimneh, Saad; Gomes-Solecki, Maria; Qiu, Wei-Gang. 2021. "Maximum antigen diversification in a lyme bacterial population and evolutionary strategies to overcome pathogen diversity". The ISME Journal. 16, 447-464. DOI:10.1038/s41396-021-01089-4
    • Schwartz, Ira; Margos, Gabriele; Casjens, Sherwood R.; Qiu, Wei-Gang; Eggers, Christian H. 2020. "Multipartite Genome of Lyme Disease Borrelia: Structure, Variation and Prophages". Current Issues in Molecular Biology. 42:409-454.DOI: https://doi.org/10.21775/9781913652616.
    • Barbour, A. G. and Qiu, W. (2019). Borreliella. In Bergey's Manual of Systematics of Archaea and Bacteria (eds W. B. Whitman, F. Rainey, P. Kämpfer, M. Trujillo, J. Chun, P. DeVos, B. Hedlund and S. Dedysh). John Wiley & Sons, Inc., in association with Bergey's Manual Trust. DOI:10.1002/9781118960608.gbm01525
  • Evolution & Learning
    • Ely, B.; Koh, W.; Ho, E.; Hassan, T.M.; Pham, A.V.; Qiu, W. (2023). Novelty Search Promotes Antigenic Diversity in Microbial Pathogens. Pathogens 12:388. https:// doi.org/10.3390/pathogens12030388
    • Attie O, Sulkow B, Di C, Qiu W (2019). Genetic codes optimized as a traveling salesman problem. PLoS ONE 14(10): e0224552. https://doi.org/10.1371/journal.pone.0224552
  • Informatics tool development
    • Hernandez Y, Bernstein R, Pagan P, Vargas, L, McCaig W, Ramrattan G, Akther S, Larracuente A, Di L, Vieira FG, Qiu WG*. 2018. BbWrapper: BioPerl-based sequence and tree utilities for rapid prototyping of bioinformatics pipelines. BMC Bioinformatics 19(1):76. [PMID: 29499649]
    • Lia Di, Pedro E Pagan, Daniel Packer, Che L Martin, Saymon Akther, Girish Ramrattan, Emmanuel F Mongodin, Claire M Fraser, Steven E Schutzer, Benjamin J Luft, Sherwood R Casjens and Wei-Gang Qiu*. 2014. BorreliaBase: a phylogeny-centered browser of Borrelia genomes. BMC Bioinformatics 15:233. [PMID 24994456]
  • Publication List (on Google Scholar)
  • NCBI Bibliography

Getting started

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