Dr Quan Gu

  • Bioinformatician (Centre for Virus Research)

telephone: 01413304019
email: Quan.Gu@glasgow.ac.uk

Biography

I am currently a Research Bioinformatician in the MRC-University of Glasgow Centre for Virus Research. Prior to my position at Glasgow, I was a postdoctoral researcher at Imperial College London (2011-2013). I received my Ph.D. degree from Donghua University in 2011.


Research interests

CVR logo

Viral genomics & bioinformatics programme

 

I am a Research Bioinformatician in the MRC-University of Glasgow Centre for Virus Research.
My broad research interests include:
Machine learning and pattern recognition;
Transcriptomics analysis;
Nuclear magnetic resonance and mass spectrum data modelling and analysis.


Publications

List by: Type | Date

Jump to: 2019 | 2018 | 2017 | 2016 | 2015 | 2014 | 2011 | 2010 | 2009 | 2008
Number of items: 22.

2019

McFarlane, S. et al. (2019) The histone chaperone HIRA promotes the induction of host innate immune defences in response to HSV-1 infection. PLoS Pathogens, 15(3), e1007667. (doi:10.1371/journal.ppat.1007667) (PMID:30901352) (PMCID:PMC6472835)

2018

Gu, Q. and Veselkov, K. (2018) Bi-clustering of metabolic data using matrix factorization tools. Methods, 151, pp. 12-20. (doi:10.1016/j.ymeth.2018.02.004) (PMID:29438828) (PMCID:PMC6297113)

Selinger, M., Wilkie, G. S., Tong, L., Gu, Q., Schnettler, E., Grubhoffer, L. and Kohl, A. (2018) Corrigendum: Analysis of tick-borne encephalitis virus-induced host responses in human cells of neuronal origin and interferon-mediated protection. Journal of General Virology, 99(8), pp. 1147-1149. (doi:10.1099/jgv.0.001109) (PMID:30067173)

Chauché, C. , Nogales, A., Zhu, H., Goldfarb, D., Shanizza A.I., A., Gu, Q., Parrish, C.R., Martínez-Sobrido, L., Marshall, J.F. and Murcia, P.R. (2018) Mammalian adaptation of an avian influenza A virus involves stepwise changes in NS1. Journal of Virology, 92(5), e01875-17. (doi:10.1128/JVI.01875-17) (PMID:29237841) (PMCID:PMC5809720)

2017

Shaw, A. E. et al. (2017) Fundamental properties of the mammalian innate immune system revealed by multispecies comparison of type I interferon responses. PLoS Biology, 15(12), e2004086. (doi:10.1371/journal.pbio.2004086) (PMID:29253856) (PMCID:PMC574750)

Bhome, R. et al. (2017) Exosomal microRNAs derived from colorectal cancer-associated fibroblasts: role in driving cancer progression. Aging, 9(12), pp. 2666-2694. (doi:10.18632/aging.101355) (PMID:29283887)

Klymenko, T. et al. (2017) RNA-Seq analysis of differentiated keratinocytes reveals a massive response to late events during human papillomavirus 16 infection, including loss of epithelial barrier function. Journal of Virology, 91(24), e01001-17. (doi:10.1128/JVI.01001-17) (PMID:29021401) (PMCID:PMC5709591)

Selinger, M., Wilkie, G. S., Tong, L., Gu, Q., Schnettler, E., Grubhoffer, L. and Kohl, A. (2017) Analysis of tick-borne encephalitis virus-induced host responses in human cells of neuronal origin and interferon-mediated protection. Journal of General Virology, 98(8), pp. 2043-2060. (doi:10.1099/jgv.0.000853) (PMID:28786780)

Dumas, M.-E. et al. (2017) Microbial-host co-metabolites are prodromal markers predicting phenotypic heterogeneity in behavior, obesity, and impaired glucose tolerance. Cell Reports, 20(1), pp. 136-148. (doi:10.1016/j.celrep.2017.06.039) (PMID:28683308)

2016

Dumas, M.-E. et al. (2016) Topological analysis of metabolic networks integrating co-segregating transcriptomes and metabolomes in type 2 diabetic rat congenic series. Genome Medicine, 8, 101. (doi:10.1186/s13073-016-0352-6) (PMID:27716393) (PMCID:PMC5045612)

Ratinier, M., Shaw, A. E., Barry, G., Gu, Q., Di Gialleonardo, L., Janowicz, A., Varela, M., Randall, R. E., Caporale, M. and Palmarini, M. (2016) Bluetongue virus NS4 protein is an interferon antagonist and a determinant of virus virulence. Journal of Virology, 90(11), pp. 5427-5439. (doi:10.1128/JVI.00422-16) (PMID:27009961) (PMCID:PMC4934764)

Orton, R.J. , Gu, Q., Hughes, J. , Maabar, M., Modha, S. , Vattipally, S. , Wilkie, G.S. and Davison, A. (2016) Bioinformatics tools for analysing viral genomic data. Revue scientifique et technique (International Office of Epizootics), 35(1), pp. 241-285. (doi:10.20506/rst.35.1.2432) (PMID:27217183)

2015

Gu, Q., Ding, Y.-S. and Zhang, T.-L. (2015) An ensemble classifier based prediction of G-protein-coupled receptor classes in low homology. Neurocomputing, 154, pp. 110-118. (doi:10.1016/j.neucom.2014.12.013)

Blomström, A.-L. et al. (2015) Transcriptome analysis reveals the host response to Schmallenberg virus in bovine cells and antagonistic effects of the NSs protein. BMC Genomics, 16, 324. (doi:10.1186/s12864-015-1538-9) (PMID:25896169) (PMCID:PMC4404599)

2014

Hudson, N. J., Baker, M. L., Hart, N. S., Wynne, J. W., Gu, Q., Huang, Z., Zhang, G., Ingham, A. B., Wang, L. and Reverter, A. (2014) Sensory rewiring in an echolocator: genome-wide modification of retinogenic and auditory genes in the bat myotis davidii. G3: Genes, Genomes, Genetics, 4(10), pp. 1825-1835. (doi:10.1534/g3.114.011262) (PMID:25096539) (PMCID:PMC4199690)

2011

Hudson, N. J., Gu, Q., Nagaraj, S. H., Ding, Y.-S., Dalrymple, B. P. and Reverter, A. (2011) Eukaryotic evolutionary transitions are associated with extreme codon bias in functionally-related proteins. PLoS ONE, 6(9), e25457. (doi:10.1371/journal.pone.0025457) (PMID:21966531) (PMCID:PMC3179510)

Gu, Q., Nagaraj, S. H., Hudson, N. J., Dalrymple, B. P. and Reverter, A. (2011) Genome-wide patterns of promoter sharing and co-expression in bovine skeletal muscle. BMC Genomics, 12, 23. (doi:10.1186/1471-2164-12-23) (PMID:21226902) (PMCID:PMC3025955)

2010

Gu, Q., Ding, Y.-S. and Zhang, T.-L. (2010) Prediction of G-protein-coupled receptor classes in low homology using Chou's pseudo amino acid composition with approximate entropy and hydrophobicity patterns. Protein and Peptide Letters, 17(5), pp. 559-567. (doi:10.2174/092986610791112693)

Shen, Y.-Z., Ding, Y.-S., Gu, Q. and Chou, K.-C. (2010) Identifying the hub proteins from complicated membrane protein network systems. Medicinal Chemistry, 6(3), pp. 165-173. (doi:10.2174/1573406411006030165) (PMID:20507268)

Gu, Q., Ding, Y.-S., Jiang, X.-Y. and Zhang, T.-L. (2010) Prediction of subcellular location apoptosis proteins with ensemble classifier and feature selection. Amino Acids, 38(4), pp. 975-983. (doi:10.1007/s00726-008-0209-4) (PMID:19048186)

2009

Ding, Y.-S., Zhang, T.-L., Gu, Q., Zhao, P.-Y. and Chou, K.-C. (2009) Using maximum entropy model to predict protein secondary structure with single sequence. Protein and Peptide Letters, 16(5), pp. 552-560. (doi:10.2174/092986609788167833) (PMID:19442235)

2008

Jiang, X., Wei, R., Zhang, T. and Gu, Q. (2008) Using the concept of chous pseudo amino acid composition to predict apoptosis proteins subcellular location: an approach by approximate entropy. Protein and Peptide Letters, 15(4), pp. 392-396.

This list was generated on Thu Sep 19 00:06:30 2019 BST.
Jump to: Articles
Number of items: 22.

Articles

McFarlane, S. et al. (2019) The histone chaperone HIRA promotes the induction of host innate immune defences in response to HSV-1 infection. PLoS Pathogens, 15(3), e1007667. (doi:10.1371/journal.ppat.1007667) (PMID:30901352) (PMCID:PMC6472835)

Gu, Q. and Veselkov, K. (2018) Bi-clustering of metabolic data using matrix factorization tools. Methods, 151, pp. 12-20. (doi:10.1016/j.ymeth.2018.02.004) (PMID:29438828) (PMCID:PMC6297113)

Selinger, M., Wilkie, G. S., Tong, L., Gu, Q., Schnettler, E., Grubhoffer, L. and Kohl, A. (2018) Corrigendum: Analysis of tick-borne encephalitis virus-induced host responses in human cells of neuronal origin and interferon-mediated protection. Journal of General Virology, 99(8), pp. 1147-1149. (doi:10.1099/jgv.0.001109) (PMID:30067173)

Chauché, C. , Nogales, A., Zhu, H., Goldfarb, D., Shanizza A.I., A., Gu, Q., Parrish, C.R., Martínez-Sobrido, L., Marshall, J.F. and Murcia, P.R. (2018) Mammalian adaptation of an avian influenza A virus involves stepwise changes in NS1. Journal of Virology, 92(5), e01875-17. (doi:10.1128/JVI.01875-17) (PMID:29237841) (PMCID:PMC5809720)

Shaw, A. E. et al. (2017) Fundamental properties of the mammalian innate immune system revealed by multispecies comparison of type I interferon responses. PLoS Biology, 15(12), e2004086. (doi:10.1371/journal.pbio.2004086) (PMID:29253856) (PMCID:PMC574750)

Bhome, R. et al. (2017) Exosomal microRNAs derived from colorectal cancer-associated fibroblasts: role in driving cancer progression. Aging, 9(12), pp. 2666-2694. (doi:10.18632/aging.101355) (PMID:29283887)

Klymenko, T. et al. (2017) RNA-Seq analysis of differentiated keratinocytes reveals a massive response to late events during human papillomavirus 16 infection, including loss of epithelial barrier function. Journal of Virology, 91(24), e01001-17. (doi:10.1128/JVI.01001-17) (PMID:29021401) (PMCID:PMC5709591)

Selinger, M., Wilkie, G. S., Tong, L., Gu, Q., Schnettler, E., Grubhoffer, L. and Kohl, A. (2017) Analysis of tick-borne encephalitis virus-induced host responses in human cells of neuronal origin and interferon-mediated protection. Journal of General Virology, 98(8), pp. 2043-2060. (doi:10.1099/jgv.0.000853) (PMID:28786780)

Dumas, M.-E. et al. (2017) Microbial-host co-metabolites are prodromal markers predicting phenotypic heterogeneity in behavior, obesity, and impaired glucose tolerance. Cell Reports, 20(1), pp. 136-148. (doi:10.1016/j.celrep.2017.06.039) (PMID:28683308)

Dumas, M.-E. et al. (2016) Topological analysis of metabolic networks integrating co-segregating transcriptomes and metabolomes in type 2 diabetic rat congenic series. Genome Medicine, 8, 101. (doi:10.1186/s13073-016-0352-6) (PMID:27716393) (PMCID:PMC5045612)

Ratinier, M., Shaw, A. E., Barry, G., Gu, Q., Di Gialleonardo, L., Janowicz, A., Varela, M., Randall, R. E., Caporale, M. and Palmarini, M. (2016) Bluetongue virus NS4 protein is an interferon antagonist and a determinant of virus virulence. Journal of Virology, 90(11), pp. 5427-5439. (doi:10.1128/JVI.00422-16) (PMID:27009961) (PMCID:PMC4934764)

Orton, R.J. , Gu, Q., Hughes, J. , Maabar, M., Modha, S. , Vattipally, S. , Wilkie, G.S. and Davison, A. (2016) Bioinformatics tools for analysing viral genomic data. Revue scientifique et technique (International Office of Epizootics), 35(1), pp. 241-285. (doi:10.20506/rst.35.1.2432) (PMID:27217183)

Gu, Q., Ding, Y.-S. and Zhang, T.-L. (2015) An ensemble classifier based prediction of G-protein-coupled receptor classes in low homology. Neurocomputing, 154, pp. 110-118. (doi:10.1016/j.neucom.2014.12.013)

Blomström, A.-L. et al. (2015) Transcriptome analysis reveals the host response to Schmallenberg virus in bovine cells and antagonistic effects of the NSs protein. BMC Genomics, 16, 324. (doi:10.1186/s12864-015-1538-9) (PMID:25896169) (PMCID:PMC4404599)

Hudson, N. J., Baker, M. L., Hart, N. S., Wynne, J. W., Gu, Q., Huang, Z., Zhang, G., Ingham, A. B., Wang, L. and Reverter, A. (2014) Sensory rewiring in an echolocator: genome-wide modification of retinogenic and auditory genes in the bat myotis davidii. G3: Genes, Genomes, Genetics, 4(10), pp. 1825-1835. (doi:10.1534/g3.114.011262) (PMID:25096539) (PMCID:PMC4199690)

Hudson, N. J., Gu, Q., Nagaraj, S. H., Ding, Y.-S., Dalrymple, B. P. and Reverter, A. (2011) Eukaryotic evolutionary transitions are associated with extreme codon bias in functionally-related proteins. PLoS ONE, 6(9), e25457. (doi:10.1371/journal.pone.0025457) (PMID:21966531) (PMCID:PMC3179510)

Gu, Q., Nagaraj, S. H., Hudson, N. J., Dalrymple, B. P. and Reverter, A. (2011) Genome-wide patterns of promoter sharing and co-expression in bovine skeletal muscle. BMC Genomics, 12, 23. (doi:10.1186/1471-2164-12-23) (PMID:21226902) (PMCID:PMC3025955)

Gu, Q., Ding, Y.-S. and Zhang, T.-L. (2010) Prediction of G-protein-coupled receptor classes in low homology using Chou's pseudo amino acid composition with approximate entropy and hydrophobicity patterns. Protein and Peptide Letters, 17(5), pp. 559-567. (doi:10.2174/092986610791112693)

Shen, Y.-Z., Ding, Y.-S., Gu, Q. and Chou, K.-C. (2010) Identifying the hub proteins from complicated membrane protein network systems. Medicinal Chemistry, 6(3), pp. 165-173. (doi:10.2174/1573406411006030165) (PMID:20507268)

Gu, Q., Ding, Y.-S., Jiang, X.-Y. and Zhang, T.-L. (2010) Prediction of subcellular location apoptosis proteins with ensemble classifier and feature selection. Amino Acids, 38(4), pp. 975-983. (doi:10.1007/s00726-008-0209-4) (PMID:19048186)

Ding, Y.-S., Zhang, T.-L., Gu, Q., Zhao, P.-Y. and Chou, K.-C. (2009) Using maximum entropy model to predict protein secondary structure with single sequence. Protein and Peptide Letters, 16(5), pp. 552-560. (doi:10.2174/092986609788167833) (PMID:19442235)

Jiang, X., Wei, R., Zhang, T. and Gu, Q. (2008) Using the concept of chous pseudo amino acid composition to predict apoptosis proteins subcellular location: an approach by approximate entropy. Protein and Peptide Letters, 15(4), pp. 392-396.

This list was generated on Thu Sep 19 00:06:30 2019 BST.