Genome Detectives Launch Event 13 July 2022

News

Take a trip down a double helix (that’s DNA)!  Become a Genome Detective and help us classify important features of genes from more than 100 disease-causing bacteria, and contribute to the prevention and treatment of infectious disease.

We will show you how anyone can be a Genome Detective – no prior scientific knowledge is required.  You just need a computer, internet connection and some curiosity to start hunting through genomes!

This is a free ‘hybrid’ event, but you will need to register for both in-person or on-line tickets here

Join us in-person at the Oxford Museum of Natural History at 19:00, or online at 19:30 to see short presentations from the comfort of your own home using Zoom.  The event is aimed for people aged 14 years or older, and is supported by the Wellcome Trust.

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Denise Tago

Submitted by tls.amoikon on

Denise Tago is an African fellow from Côte d'Ivoire. She holds a certificate of training in audio visual journalism and a certificate of mobile journalism from the media school "Studio Mozaik" in Côte d'Ivoire. Denise has worked as a presenter, reporter and editor for television and web radio. She has participated in programmes on health, youth and politics as a reporter namely

- IYF World Youth Camp in South Korea in 2016

- volunteer doctor programme for Buruli ulcer patients initiated by the NGO IYF in 2019

- awareness caravan for peaceful legislative elections (youth spirit, peace spirit) in Côte d'Ivoire initiated by Studio Mozaik in 2021.

Denise joined the MEVacP project team as a communication assistant, she was in charge of ensuring the visibility of some of the project's activities on social networks, creating content for the website in order to raise awareness among the different targets and contributing to the popularisation of the tools created.

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Communication Assistant (Casual Contract)
African Fellow (2021/2022)

BIGSdb v1.33.0 released

News

BIGSdb v1.33.0 has been released. This adds data drill-down functionality linked to the front-end dashboards on isolate databases hosted on PubMLST.

From any dashboard element displaying a field breakdown visualisation, you can now select ‘Data explorer’.

Select data explorer icon

This displays a table showing frequency values for the selected field. Each label is hyperlinked and leads directly to a data query to retrieve records.

Hyperlinked values lead directly to data query

You can then select any or all values and up to 3 other fields to investigate relationships.

Select values and fields

A decomposition tree is displayed and each node can be clicked to drill down to other fields. A bar chart indicates the relative proportions of values for each field.

Decomposition tree breaks down field values

Finally, clicking any node label will take you to a data query page that returns a dataset filtered by the selected values.

Clicking node labels take you to a data query filtered by selected field values

BIGSdb is open source software that powers all the databases on PubMLST. It can be downloaded from https://github.com/kjolley/BIGSdb.

Julia Moreno-Manjón

Submitted by andrea.kastner… on

I am a Catalan student with a background in BSc. Biology. I did my MSc. thesis working with VLPs in Prof. Martin Bachmann’s lab and I am currently undertaking a DPhil in Mexico where I study the resistome and biofilm formation of highly resistant Acinetobacter baumannii isolates both phenotypically and genotypically.

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Julia Moreno image
Visiting DPhil Student (2022)

Romero-López JP, Carnalla-Cortés M, Pacheco-Olvera DL, Ocampo-Godínez JM, Oliva-Ramírez J, Moreno-Manjón J, Bernal-Alferes B, López-Olmedo N, García-Latorre E, Domínguez-López ML, Reyes-Sandoval A, Jiménez-Zamudio L. A bioinformatic prediction of antigen presentation from SARS-CoV-2 spike protein revealed a theoretical correlation of HLA-DRB1*01 with COVID-19 fatality in Mexican population: An ecological approach. J Med Virol. 2021 Apr;93(4):2029-2038. doi: 10.1002/jmv.26561. Epub 2020 Oct 10. PMID: 32986250; PMCID: PMC7537233.

Mateo-Estrada V, Fernández-Vázquez JL, Moreno-Manjón J, Hernández-González IL, Rodríguez-Noriega E, Morfín-Otero R, Alcántar-Curiel MD, Castillo-Ramírez S. Accessory Genomic Epidemiology of Cocirculating Acinetobacter baumannii Clones. mSystems. 2021 Aug 31;6(4):e0062621. doi: 10.1128/mSystems.00626-21. Epub 2021 Jul 20. PMID: 34282943; PMCID: PMC8407383.

Made Krisna

Submitted by andrea.kastner… on

My previous educational background includes a medical doctor and a master’s in biomedical science, concentrating in molecular biology and genetics. Through my education and work, I gained interest and experience in antimicrobial resistance and molecular epidemiology of bacterial pathogens causing respiratory and invasive diseases, especially meningitis and sepsis, such as Haemophilus influenzae and Streptococcus pneumoniae. I am currently undertaking a DPhil where I will be studying the population genetics of Haemophilus influenzae in Indonesian population in order to study the vaccination impact as well as to find an improved vaccination and point-of-care diagnostic strategy in the future.

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Made Krisna image
DPhil Student
(My chosen first name is Krisna)

Krisna, M.A., Aswin, Y.A. Alteration of the Signal Transduction Pathway in RASopathies as a Basis of Targeted Therapeutic Drug Development. JIMC 2020. 2020 November; p. 318-329.

Rini, I.S., Krisna, M.A., Kamayana, J., Djarot, K.R., Gunardi, A. J. Keystone Perforator Island Flap for Postmastectomy Defect Resurfacing in Late-stage Breast Cancer Patients. Plast Reconstr Surg Glob Open 2019;7:e2457; doi: 10.1097/GOX.0000000000002457.

Rini IS, Krisna MA, Basuki A, Djarot KR. The characteristics of private plastic surgery practice in developing country: An epidemiological study. Indian J Plast Surg 2018;51:309-15.

Training in Molecular Epidemiology for Vaccine Policy (MEVACP)

Event

Date : 15-18 March, 2022

Location : Hybrid meeting with a group in Abidjan/Côte d’Ivoire at CSRS and a group in the UK with online zoom links between the two

Topic: Use of molecular epidemiology to strengthen meningitis diagnosis, care and prevention through vaccination, report from a multidisciplinary projects.

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MEVACP flyer
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MEVACP flyer french

Dr Annapaula Correia

Submitted by andrea.kastner… on

I’m a postdoctoral researcher investigating the antimicrobial capability of protein antibiotics. After obtaining my BSc in Biomedical Science I decided to pursue a career in microbiology and worked as a Research Assistant at University College London. There I investigated the antimicrobial activity of photodynamic therapy and novel catheters embedded with light activated antimicrobials. I then undertook a PhD at the University of East Anglia where I used high-throughput phenomics to link genotype and phenotype, to study antimicrobial resistance, metabolic capability, biofilms and virulence in Pseudomonas aeruginosa. The aim of my current project is to use population genetics and transposon directed insertion sequencing (TraDIS) to study new protein antibiotics (bacteriocins) along with their import and susceptibility mechanisms in Pseudomonas aeruginosa and Klebsiella pneumoniae. I am also using machine learning and word embedding based methods to identify new bacteriocins.

Research Interests

Bioinformatics | Genomics | High-throughput mutagenesis | Machine learning | Molecular microbiology | Population biology | Transcriptomics

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Annapaula image
Post Doc Researcher

Positive Research Culture Award

News

The chicken journal club has received an award for Promoting a Positive Research Culture. 

Definition: The Research Culture Enhancement Fund provides funding to any activity which aims to improve research culture in the University. Proposals may be for new initiatives or may aim to accelerate or complement existing research culture or Equality, Division and Inclusion (EDI) activity across the University.

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Dessislava Veltcheva award
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