Main Page: Difference between revisions

Revision as of 16:35, 24 March 2023

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

Lyme Genomics
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
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)
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
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
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
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
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
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]

last update: March 20, 2023

@@ Line 32: / Line 32: @@
 ==Genomic Data Browsers==
-* For Bargonetti lab (@Hunter): [http://borreliabase.org/~wgqiu/clickme-khalikuz/temp-Points.html Phosphoproteome MDM2KD data set] [http://borreliabase.org/~wgqiu/mpai-v3/ Genes & Pathways Associated with mTP53]
+<gallery mode=packed heights=200px perrow="4" caption="Collaborations">
+File:[http://borreliabase.org/~wgqiu/clickme-khalikuz/temp-Points.html Screenshot 2023-03-24 122016.png]| Phosphoproteome MDM2KD data set (for Bargonetti lab @Hunter)
+File:[http://borreliabase.org/~wgqiu/mpai-v3/ Screenshot 2023-03-24 122312.png]| Genes & Pathways Associated with mTP53 (for Bargonetti lab @Hunter)
+</gallery>
 * For Wu lab (@Shenzhen): [http://borreliabase.org/~wgqiu/gbs-browser-v3/ Group B Streptococcus (GBS) genome browser]
 * For Ogunwobi lab (@Hunter): [http://borreliabase.org/~wgqiu/oneKGenome/ 1K genome]
@@ Line 38: / Line 42: @@
 * For Melendez lab (@Hunter): [http://borreliabase.org/~wgqiu/carmen-proteomics/ Proteomics GSEA results]
 * For Skolnik lab (@NYU): [http://borreliabase.org/~wgqiu/Tcell-pHis-ACS/ pHis Protein Browser]
 * [http://borreliabase.org/~wgqiu/code-wheel Codon Wheel]
 * [http://borreliabase.org/~wgqiu/ospC-sequencing OspC amplicon sequencing from ticks]