Paula Andrea Martinez Email & Phone Number

Brisbane City, Qld, Au

Brisbane, Queensland, Australia

Developing and implementing a national research software agenda in Australia via the ARDC’s Platforms and Software theme. Over 2020-2023, this initiative will enable recognition of research software as an important research output, and better research enabler.

Brisbane, Queensland, Australia

This position will focus on supporting the FAIR for Research Software Working Group (FAIR4RS WG) that ReSA is coleading with FORCE11 and the Research Data Alliance. FAIR4RS WG aims to create community-sanctioned FAIR principles for research software by mid-2021, and then provide implementation guidelines and adoption examples by early 2022.Create and implement an engagement plan ensuring diverse stakeholders are involvedBuild relationships with stakeholders involved in working with… Show more This position will focus on supporting the FAIR for Research Software Working Group (FAIR4RS WG) that ReSA is coleading with FORCE11 and the Research Data Alliance. FAIR4RS WG aims to create community-sanctioned FAIR principles for research software by mid-2021, and then provide implementation guidelines and adoption examples by early 2022.Create and implement an engagement plan ensuring diverse stakeholders are involvedBuild relationships with stakeholders involved in working with FAIR4RS WGDevelop and implement the initial phases of a sustainable community of FAIR4RS stakeholdersDevelop materials to support consultations, and provide event management of highly interactive knowledge sharing opportunities.Support project management. Show less

Australia

Our main goal is teaching basic programming skills to researchers. In the last two and a half years, I have been involved in several workshops and taught Shell, R, SQL and git. Thanks to invitations and sponsors we were able to instruct at several institutions around Australia.

Brisbane, Australia

R-Ladies Brisbane is part of a world-wide organisation to promote diversity in the R community, empower women in STEM and Data Science. Get in contact by sending an email to brisbane@rladies.org

Brisbane, Queensland, Australia

eResearch Services High Performance ComputingTraining to develop efficiency and computing skillsAdvice on FAIR projects applicationsConsultations sessions about data management and program efficiency.

Brisbane, Australia

Dr Martinez was the Acting Training manager after serving as the Training Coordinator for a year at the National Imaging Facility (NIF) for the Characterisation data enhanced Virtual Laboratory. Her role encompassed by liaising with image analysis experts to promote the infrastructure supporting the reuse of scholarly image data. We train researchers in good data management and promote the FAIR principles on data-intensive science.

Belgium

ELIXIR Europe is the leading life science organisation. It coordinates, integrates and sustains bioinformatics resources across its (21) member states and enables users in academia and industry to access services that are vital for their research. My goal is to aid life science professionals to improve their data analysis skills. With my background as trainer I use evidence-based methods that underpin successful pedagogy to teach. As part of the Belgium node I am part of VIB and the project… Show more ELIXIR Europe is the leading life science organisation. It coordinates, integrates and sustains bioinformatics resources across its (21) member states and enables users in academia and industry to access services that are vital for their research. My goal is to aid life science professionals to improve their data analysis skills. With my background as trainer I use evidence-based methods that underpin successful pedagogy to teach. As part of the Belgium node I am part of VIB and the project is linked to several universities and research institutions around Belgium.Please contact me if you want to receive a workshop, If you would like help organising a workshop or if you want to be involved as trainer in any of the upcoming workshops. Show less

Brisbane, Australia

This was a short time job coming back to the learning and research services team at the Centre of Digital Scholarship from the University of Queensland library. My efforts were to contribute further education in data skills at UQ. I had offered specialised training and assistance in the areas of data analysis and visualisation. I planned, organised and instructed R and OpenRefine workshops to staff and students from different disciplines and levels. In the course of two months I taught over… Show more This was a short time job coming back to the learning and research services team at the Centre of Digital Scholarship from the University of Queensland library. My efforts were to contribute further education in data skills at UQ. I had offered specialised training and assistance in the areas of data analysis and visualisation. I planned, organised and instructed R and OpenRefine workshops to staff and students from different disciplines and levels. In the course of two months I taught over 230 members of UQ. The report can be found at https://github.com/orchid00/CDS/blob/master/R/Report/report_feedback.md All the material is also publicly accessible using a CC licence the link is attached too. On a daily basis, I had an open desk for consultation and guidance to promote and enhance data management and visualisation skills, answering questions.I had also organised the first hands-on hacky hour to solve visualisation problems. We were three helpers and about 20 attendees. Please contact me if you need more information about this position. Show less

On Line

I have worked as co-maintainer (one of two maintainers) of the SQL Data Carpentry SQL lesson for almost 2 years. This work aids evaluating submissions that shape and improve the lesson content. Lesson maintenance involves discussing and resolving issues raised about the lesson, managing corrections and updates to material, and implementing larger directional and content upgrades.Working as a lesson maintainer has sharpened my skills in the following ways. I have -developed… Show more I have worked as co-maintainer (one of two maintainers) of the SQL Data Carpentry SQL lesson for almost 2 years. This work aids evaluating submissions that shape and improve the lesson content. Lesson maintenance involves discussing and resolving issues raised about the lesson, managing corrections and updates to material, and implementing larger directional and content upgrades.Working as a lesson maintainer has sharpened my skills in the following ways. I have -developed excellent version control skills and experience with git and GitHub broadened my strategic thinking and decision-making capabilities -gained valuable experience managing a collaborative project – both the technical aspects and managing interpersonal interactions with a wide range of community members -gained useful teaching insights and perspectives by working so closely on a specific lesson -developed transferable skills in software development and teaching -volunteered my time to help teach others dat] skills because I believe in the importance of these skills to foster research -learned better time management to stay on top of all my commitments Show less

Brisbane, Australia

I formed part of the learning and research services team to contribute to further education development at UQ. My duties involved offering specialised training and assistance in the areas of data analysis and visualisation. I planned, organised and instructed R training to staff and students from different disciplines and levels. Also, I had an open desk for consultation and guidance to promote and enhance data management and visualisation skills.

Brisbane, Australia

Mainly in charge of bioinformatics analyses for genotyping by sequencing. At AGRF I demonstrated my ability to learn quickly by getting involved in generating, using and maintaining the in-house pipeline around the Stacks software. Furthermore, I had the opportunity to work with a wide variety of organisms including human, mice, fly, and exotic ones such as wild plants, insects, and marine organisms, among others. The samples provided for analysis included fresh and museum collections. On a… Show more Mainly in charge of bioinformatics analyses for genotyping by sequencing. At AGRF I demonstrated my ability to learn quickly by getting involved in generating, using and maintaining the in-house pipeline around the Stacks software. Furthermore, I had the opportunity to work with a wide variety of organisms including human, mice, fly, and exotic ones such as wild plants, insects, and marine organisms, among others. The samples provided for analysis included fresh and museum collections. On a daily basis, I used SGE and programmed in Shell, R, SQL, Python, and occasionally in Perl. We often attended client consultations and provided them results from custom bioinformatic analyses through custom visualisations that I prepared. Show less

Brisbane, Australia

I had joined the Applied Bioinformatics Group in Brisbane Australia for my doctoral degree at the end of 2012. My doctoral research project topic covered the computational study of genomic diversity in a complex tetraploid organism of the Brassicaceae family. This was a completely computational analysis with data produced by international collaborators. During my PhD, I had the opportunity to use a wide range of bioinformatics software packages and algorithms for the computational analysis of… Show more I had joined the Applied Bioinformatics Group in Brisbane Australia for my doctoral degree at the end of 2012. My doctoral research project topic covered the computational study of genomic diversity in a complex tetraploid organism of the Brassicaceae family. This was a completely computational analysis with data produced by international collaborators. During my PhD, I had the opportunity to use a wide range of bioinformatics software packages and algorithms for the computational analysis of the genomic data, comparative genomics, marker inheritance, SNP discovery, data mining and clustering techniques. Show less

The University Of Queensland

The Association of postgraduate students is the UQ Union body that takes care of postgraduate student matters. As Vice chair I was able to organise events for postgraduates. Coordinate postgraduate students representatives, who meet with the different UQ boards to discuss student matters. Student representatives are the voice for our cohort and are sent for the interest of postgraduate students. This year we had improved representation within coursework and research students across UQ and the… Show more The Association of postgraduate students is the UQ Union body that takes care of postgraduate student matters. As Vice chair I was able to organise events for postgraduates. Coordinate postgraduate students representatives, who meet with the different UQ boards to discuss student matters. Student representatives are the voice for our cohort and are sent for the interest of postgraduate students. This year we had improved representation within coursework and research students across UQ and the different campuses. We have made strong links with the gradschool and the UQ Union so that the future of the association continues to be strong. Show less

Gothenburg, Sweden

Antibiotics are vital for treating bacterial infections. The high use of antibiotics in human and veterinary medicine have however resulted in an accelerated development of multiresistant bacteria. Under the selection pressure from antibiotics, bacteria become resistant by acquiring antibiotic resistance genes (ARG) through the process of horizontal gene transfer. Furthermore, many forms of antibiotics are naturally produced by microorganisms and have been present in ecosystems for millions of… Show more Antibiotics are vital for treating bacterial infections. The high use of antibiotics in human and veterinary medicine have however resulted in an accelerated development of multiresistant bacteria. Under the selection pressure from antibiotics, bacteria become resistant by acquiring antibiotic resistance genes (ARG) through the process of horizontal gene transfer. Furthermore, many forms of antibiotics are naturally produced by microorganisms and have been present in ecosystems for millions of years. Bacterial communities, therefore, maintain a large collection of resistance genes (the resistome) which contains elements for resistance against most classes of clinically important antibiotics (Martinez, 2008). Recent studies have shown that the resistome is surprisingly large in environmental bacterial communities but the exact size and diversity have not yet been systematically studied (Allen et. al., 2010).The aim of this project was to characterize known resistance genes in environmental bacterial communities. For this research, I had the opportunity to independently developed my research plan and approach of analysis. The data used was collected from the public database iMicrobe, which stores worldwide sequencing projects (sequencing platforms: Illumina and Roche 454). The resulting workflow produced encompassed data compression and statistical analysis. The software was developed using Python, R and a MySQL database. The goal was achieved, resulting in the computational identification of types of antibiotic-resistant (AR) genes in natural environments and their distribution. Show less

Department Of Zoology, Institute For Neuroscience And Physiology

This was a great opportunity to work as part of a multinational project with extended research aims. During this time I developed an R pipeline to assess the quality of NimbleGen Microarray data. As a result, researchers opted to transition to NimbleGen for a larger dataset of samples. All of the samples were quality controlled for further analysis. Later on, we extended the consulting services and I developed a pipeline to select the most expressed genes from a larger transcriptomic… Show more This was a great opportunity to work as part of a multinational project with extended research aims. During this time I developed an R pipeline to assess the quality of NimbleGen Microarray data. As a result, researchers opted to transition to NimbleGen for a larger dataset of samples. All of the samples were quality controlled for further analysis. Later on, we extended the consulting services and I developed a pipeline to select the most expressed genes from a larger transcriptomic experiment. The data were collected from different marine environments along the Baltic sea (Sweden, Germany, and Denmark), in conditions ranging from polluted to pristine. A final subset of genes was curated using existing PCR results for validation of the pipeline. The results were linked to the ecotoxicogenomics investigation of BALCOFISH.BALCOFISH is a consortium consisting of scientists in Sweden, Denmark and Germany working on the effects of pollutions on the Baltic Sea. I was part of results from Task 3.6 lead by Joakim Larsson’s group.http://www.balcofish.science.gu.se/englishhttp://bioinformatics.zool.gu.se/~paula/ Show less

Assessed technology systems, individual computers, and servers. Managed content systems and a profile database. Developed the company website. Competencies: HTML, CSS, SQL Server, MySQL.

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Doctor Of Philosophy (Ph.D.), Applied Bioinformatics

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Master Of Science (Msc), Bioinformatics And Systems Biology

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