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Welcome to Qiu Lab Wiki @ Hunter 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) Directions by Google Map

Lab publications

• Lyme Genomics
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  Li, Di, Zeglis, Qiu (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

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  Di*, Akther*, Bezrucenkovas, Ivanova, Sulkow, Wu, Mneimneh, Gomes-Solecki, Qiu (2021). "Maximum antigen diversification in a lyme bacterial population and evolutionary strategies to overcome pathogen diversity". The ISME Journal. 16, 447-464. [PMID 34413477] (*co-first authors)

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  Schwartz, Margos, Casjens, Qiu, Eggers (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

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  Barbour & Qiu (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: https://doi.org/10.1002/9781118960608.gbm01525

• Evolution & Learning Algorithms
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  Ely, Koh, Ho, Hassan, Pham, Qiu (2023). Novelty Search Promotes Antigenic Diversity in Microbial Pathogens. Pathogens 12:388. DOI: https://doi.org/10.3390/pathogens12030388

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  Attie, Sulkow, Di, Qiu (2019). Genetic codes optimized as a traveling salesman problem. PLoS ONE 14(10): e0224552. DOI: https://doi.org/10.1371/journal.pone.0224552

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  Yan, Deforet, Boyle, Rahman, Liang, Okegbe, Dietrich, Qiu, Xavier (2017). Bow-tie signaling in c-di-GMP: Machine learning in a simple biochemical network. PLoS Comput Biol 13(8): e1005677. DOI: https://doi.org/10.1371/journal.pcbi.1005677

• Informatics Tools
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  Hernandez, Bernstein, Pagan, Vargas, McCaig, Ramrattan, Akther, Larracuente, Di, Vieira, Qiu. (2018). BbWrapper: BioPerl-based sequence and tree utilities for rapid prototyping of bioinformatics pipelines. BMC Bioinformatics 19(1):76. [PMID 29499649]

• 

  Di, Pagan, Packer, Martin, Akther, Ramrattan, Mongodin, Fraser, Schutzer, Luft, Casjens and Qiu. (2014). BorreliaBase: a phylogeny-centered browser of Borrelia genomes. BMC Bioinformatics 15:233. [PMID 24994456]

• Full list by Google Scholar
• Full list by NCBI Bibliography

last update: March 20, 2023

Genomic Data Browsers

• With Collaborators
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  Phosphoproteome MDM2KD data set (for Bargonetti Lab @Hunter)
  

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  Genes & Pathways Associated with mTP53 (for Bargonetti Lab @Hunter)
  

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  Group B Streptococcus (GBS) genome browser (for Wu Lab @Shenzhen)
  

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  1K genome (for Ogunwobi Lab @Hunter)
  

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  E faecalis genome browser (for Morales Lab @WCMC)
  

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  Proteomics GSEA results (for Melendez Lab @Hunter)
  

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  pHis Protein Browser (for Skolnik lab @NYU)
  

• Codon Wheel
• OspC amplicon sequencing from ticks

Lab Resources

• Github repositories: https://github.com/weigangq/?tab=repositories
• Mini-Protocols (frequently used computer codes and pipelines)
• Monte Carlo Club (summer projects)
• Tick handling protocols
• Hunter HPC Usage

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