Dr
Roy
Chaudhuri
School of Biosciences
Lecturer in Bioinformatics
r.chaudhuri@sheffield.ac.uk
+44 114 222 2837
+44 114 222 2837
Firth Court
Full contact details
Dr Roy Chaudhuri
School of Biosciences
Firth Court
School of Biosciences
Firth Court
Western Bank
Sheffield
S10 2TN
- Research interests
-
My research interests are primarily in the area of bacterial genomics.
Current research topics include:
- Comparative genomics and phylogenetics of bacterial pathogens, particularly E. coli and Salmonella
- Use of transposon insertion sequencing methods (TraDIS/TnSeq/HITS/InSeq) to identify essential bacterial genes and genes important for survival in particular environments such as during infection of a model system
- Development of user-friendly software tools and online resources for exploring data from -omics technologies. Examples include coliBASE, Xbase and the recently-funded .
- Publications
-
Show: Featured publications All publications
Featured publications
Journal articles
- . Infection and Immunity, 84(4), 989-997.
- . BMC Genomics, 15.
- . Vet Microbiol, 166(3-4), 558-566.
- . J Bacteriol, 195(18), 4264-4273.
- . PLoS Genet, 9(4), e1003456.
- . Infect Genet Evol, 12(2), 214-226.
- . Microbiology (Reading), 157(Pt 10), 2922-2932.
- . Journal of Bacteriology, 193(7), 1771-1776.
- . J Bacteriol, 192(21), 5822-5831.
- . PLoS One, 5(1), e8801.
- . Plos Pathogens, 5(7).
- . BMC Genomics, 10, 291.
- . Journal of Bacteriology, 190(20), 6881-6893.
- . Nucleic Acids Research, 34(1), 1-9.
- . Nucleic Acids Res, 34(Database issue), D335-D337.
- . Nature Communications, 6.
All publications
Journal articles
- . Microbial Genomics, 12(5).
- . Microbiology, 172(2).
- . PLOS Biology, 22(8).
- . Microbial Genomics, 10(8).
- . Protein Science, 32(11).
- . PLOS Pathogens, 19(6).
- . mSphere, 8(1).
- . New Phytologist, 236(2), 622-638.
- . Microbiology, 167(12).
- . Animal Diseases, 1(1).
- . Bioinformatics, 37(19), 3387-3387.
- . Bioinformatics, 37(23), 4343-4349.
- . PeerJ, 9.
- . mSphere, 5(4).
- . PLoS ONE, 15(1).
- . Microbiology Resource Announcements, 9(1).
- . Nature Communications, 10(1).
- . PLOS Pathogens, 15(9).
- . Microbiology Resource Announcements, 8(30).
- .
- . mSystems, 4(4).
- . Access Microbiology, 1(1A).
- . PLoS Biology, 17(1).
- . BMC Genomics, 20.
- . Infection and Immunity, 86(3).
- . Journal of Clinical Microbiology, 55(9), 2617-2628.
- . PLoS ONE, 12(8).
- . Microbial Genomics, 3.
- . Frontiers in Microbiology, 8.
- . Genome Announcements, 4(6).
- . Veterinary Record, 179(11).
- . Frontiers in Microbiology, 7:810.
- . JOURNAL OF BACTERIOLOGY, 198(9), 1393-1400.
- . The ISME Journal, 10, 2468-2477.
- . Infection and Immunity, 84(4), 989-997.
- . Genome Announcements, 4(1), e01667-15-e01667-15.
- . Proceedings of the National Academy of Sciences, 112(51), 15725-15730.
- . Journal of Clinical Microbiology, 53(12), 3812-3821.
- . Frontiers in Microbiology , 6.
- . Veterinary Microbiology, 179(3-4), 341-341.
- . Veterinary Microbiology, 178(3-4), 279-282.
- . Journal of Antimicrobial Chemotherapy, 70(8), 2217-2222.
- . Molecular Biology and Evolution, 32(4), 888-895.
- . Heredity, 114(1), 48-55.
- . BMC Genomics, 15.
- . Molecular Ecology, 23(21), 5179-5192.
- . Journal of Clinical Microbiology, 52(7), 2380-2385.
- . PLoS ONE, 9(6).
- . PLoS ONE, 9(2).
- . Veterinary Research, 44(1).
- . PLOS ONE, 8(11).
- . Veterinary Research, 44(1).
- . Vet Microbiol, 166(3-4), 558-566.
- . J Bacteriol, 195(18), 4264-4273.
- . PLoS Genet, 9(4), e1003456.
- . Infection and Immunity, 81(3), 838-849.
- . Infect Genet Evol, 12(2), 214-226.
- . Microbiology (Reading), 157(Pt 10), 2922-2932.
- . Journal of Bacteriology, 193(17), 4540-4540.
- . Journal of Bacteriology, 193(7), 1771-1776.
- . EMBO Rep, 12(2), 123-128.
- . J Bacteriol, 192(21), 5822-5831.
- . PLoS One, 5(1), e8801.
- . Plasmid, 63(1), 46-52.
- . Methods Mol Biol, 465, 419-431.
- . Plos Pathogens, 5(7).
- . BMC Genomics, 10, 291.
- . Journal of Bacteriology, 190(20), 6881-6893.
- . Nucleic Acids Res, 36(Database issue), D543-D546.
- . PLoS One, 2(4), e352.
- . J Clin Microbiol, 44(12), 4528-4536.
- . Infection and Immunity, 74(10), 5914-5925.
- . Nucleic Acids Research, 34(1), e3.
- . Nucleic Acids Research, 34(1), 1-9.
- . Nucleic Acids Res, 34(Database issue), D335-D337.
- . Journal of Bacteriology, 187(23), 8164-8171.
- . Biochim Biophys Acta, 1745(2), 223-253.
- . J Clin Microbiol, 43(5), 2425-2434.
- . NUCLEIC ACIDS RESEARCH, 33(1).
- . Trends Microbiol, 13(4), 143-149.
- . Infect Immun, 72(12), 7282-7293.
- . J Bacteriol, 186(11), 3547-3560.
- coliBASE: An online database for Escherichia coli, Shigella and Salmonella comparative genomics. Nucleic Acids Research, 32(DATABASE ISS.), D296-D299.
- . Trends Microbiol, 12(11), 476-482.
- . Nucleic Acids Res, 32(Database issue), D296-D299.
- . Curr Opin Microbiol, 6(5), 519-527.
- . Trends Microbiol, 10(12), 556-563.
- . Philosophical Transactions of the Royal Society B Biological Sciences, 356(1410), 867-876.
- . Nature Communications, 6.
- . Nature Communications, 6(1).
Book chapters
- , The Molecular Epidemiology of Human Viruses (pp. 65-96). Springer US
- , Bacterial Pathogenomics (pp. 21-48). ASM Press
Conference proceedings
- Validation Study of the Parkinson's disease (PD) Stigma Questionnaire (PDStigmaQuest). MOVEMENT DISORDERS, Vol. 39 (pp S239-S239)
- Pain in People with Multiple System Atrophy. MOVEMENT DISORDERS, Vol. 38 (pp S65-S66)
- Safety and tolerability of apomorphine sublingual film and subcutaneous apomorphine for the treatment of OFF episodes in Parkinson's disease. MOVEMENT DISORDERS, Vol. 37 (pp S348-S348)
- Efficacy of apomorphine sublingual film versus subcutaneous apomorphine for the treatment of OFF episodes in Parkinson's Disease. MOVEMENT DISORDERS, Vol. 37 (pp S356-S356)
- Challenges in Outcome Measure Selection in Multi-Arm Multi-Stage Clinical Trials in Parkinson Disease. MOVEMENT DISORDERS, Vol. 37 (pp S329-S329)
- Type 2 diabetes mellitus may worsen severity of motor symptoms in people with Parkinson's disease. MOVEMENT DISORDERS, Vol. 35 (pp S153-S153)
Preprints
- , openRxiv.
- , Cold Spring Harbor Laboratory.
- , Cold Spring Harbor Laboratory.
- , Springer Science and Business Media LLC.
- , Springer Science and Business Media LLC.
- , Springer Science and Business Media LLC.
- , Cold Spring Harbor Laboratory.
- , Cold Spring Harbor Laboratory.
- , Cold Spring Harbor Laboratory.
- Teaching activities
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Module Coordinator: MBB344 Genomic Science
Level 3 Modules
MBB339 Evolutionary Genetics
MBB344 Genomic Science
MBB360 Project
MBB363 Genetics Data HandlingLevel 2 Modules
MBB267 Genes, Genomes and Chromosomes
Level 1 Modules
MBB165 Practical Molecular Bioscience 1