Deadline for applications: Jan 27, 2023

Employer: Uppsala University

Brief description:
This position is placed at NBIS Compute and Storage. This is a group of 4-5 bioinformaticians and other experts tasked with supporting life science researchers in the use of large-scale compute and storage systems. Primarily, these are the systems at UPPMAX, but other systems as well, such as clouds and dedicated GPU or large-memory. The unit has over 1000 annual users nationally in a wide range of research areas. The environment that has been built is unique and makes world-class research possible.

General tasks include advanced user support, installation of software and database resources, maintenance and development of the digital research environment, training of user groups on relevant topics, scripting of tools for internal or external use, and evaluation of project proposals and ongoing projects.

This position is intended to strengthen the group’s competence in bioinformatics, especially concerning human data, as well as analysis of optical or electronic microscopy images.

Deadline for applications: Jan 27, 2023

Employer: Uppsala University

Brief description:
SciLifeLab Data Centre söker 1-3 motiverade och kunniga systemutvecklare. Vi kommer inom den nya nationella dataplattformen för SciLifeLab och DDLS-programmet bygga upp tjänster för serviceenheter och forskargrupper inom life science. Arbetet kommer att inbegripa både nyutveckling, existerande mjukvarukomponenter och kommersiella system.

Du kommer att ha möjlighet att arbeta i agila utvecklingsprojekt för t.ex:

• System för forskningsdata från t.ex. genomik, proteomik, mikroskopi, och kemisk biologi, särskilt integration mot våra dataportaler för pandemiberedskap och data-driven livsvetenskap.
• Tjänster för hantering av hälsodata i samverkan med aktörer inom sjukvården eller klinisk forskning.
• System och verktyg för metadatahantering, t.ex. information om provberedning, experimentell bearbetning och produktion av mätdata.
• Tjänster för distribuerade lagrings- och beräkningssystem kopplade till metadata för studier och prov.
• Verktyg och tekniska utvecklingsmiljöer för träning av teknisk personal.


I uppgifterna ingår även utformning och testning av system tillsammans med användare och dataingenjörer. Du kommer att arbeta i ett team med forskare, ingenjörer, data stewards och systemutvecklare, mitt i SciLifeLabs nationella forskningsinfrastruktur. Arbetet inkluderar samarbeten mellan SciLifeLab och nationella centra för e-infrastruktur, t.ex. Berzelius vid Nationellt Superdatorcentrum.

Deadline for applications: Jan 30, 2023

Employer: Karolinska Institute

Brief description:
We have an open postdoctoral position in RNA biology. The available postdoctoral position concerns developing and applying novel genomic approaches to study RNA-protein interaction. The candidate will focus on investigation the dynamic interaction between the transcriptome and the proteome, and how the disruption of those interaction can be used to modulate gene expression and cellular phenotypes in health and disease.

The candidate is expected to contribute his/her own ideas to the common goal of understanding how RNA biology and proteostasis contributes to the appearance of divergent cellular phenotypes. The candidate will perform original research in genomics, and acquire the required experimental and computational skills necessary for the completion of the project. The candidate will use varied model organism, from budding yeast to human. The candidate will be responsible for integrating different kinds of biological information to answer relevant questions (i.e. genomics, proteomics, biochemical…). The successful candidate will take a strong lead in the experimental design, and collaborate with other team members. The candidate is expected to communicate the scientific results by writing up scientific papers and attending scientific meetings. The ideal candidate is also expected to participate in the general duties of the team and to effectively communicate with scientists of very diverse backgrounds in a highly interdisciplinary and international environment. Working language is English.

Deadline for applications: Jan 31, 2023

Employer: University of Gothenburg

Brief description:
We are looking for an experienced Associate Researcher/Scientific Officer with strong interest in developing, implementing and adjusting feedback microscopy tools at the Centre for Cellular Imaging. This job position focuses on the automation of, for example, targeted microscopy, functional microscopy, and tracking of cells over time using both widefield and laser scanning microscopes. At this post you will also explore the implementation of smart microscopy tools in the field of electron microscopy - Transmission and Scanning. Image analysis pipelines will include machine learning and deep learning (Artificial Intelligence). The post holder will implement on-the-fly data processing and real time feedback into imaging workflows, which is particularly important for live imaging. Another important task will be the management of large data, here the post holder will explore the automated pre-processing of images before transfer to storage servers.

The successful candidate will work in the Centre for Cellular Imaging advanced microscopy facility and: 1) Develop smart microscopy workflows to service our scientific community; 2) Educate and train core facility users in the implementation of smart microscopy workflows. 3) Support our users by assisting and training in bioimage analysis. 4) Give advice on the design of imaging experiments. 5) Continuing professional development in the field of smart microscopy by attending courses and workshops, presenting work at scientific meetings, and keeping abreast of the relevant literature; 6) Participate in the organization and teaching of workshops for our broad scientific community and of practices/lectures for graduate and undergraduate courses.

Deadline for applications: Jan 31, 2023

Employer: Umeå University

Brief description:
Secondary metabolites (SMs) produced by microbes have critically important roles in human health, including as essential therapeutics (e.g., antimicrobials, anticancer agents). (Meta)genomic data derived from microbes thus offers tremendous potential as a reservoir for novel SMs; however, accurate, scalable in silico methods are necessary to leverage such data for SM discovery. Here, the PhD student will develop and apply bioinformatic tools, which can facilitate the discovery of novel SMs from millions of microbial (meta)genomes available in public databases.

You who are admitted to doctoral studies at the Faculty of Medicine will be part of the faculty-wide doctoral education programme. The doctoral programme comprises 25 credits and is offered in two study variants: 25 credits spread over 8 terms (a total of 4 years) or over 12 terms (a total of 6 years), starting each autumn and spring semester.

Eligibility requirements:

• You must have at least 240 higher education credits (hc), of which at least 60 hc are at an advanced level, in natural sciences, life sciences, or engineering.
• Applicants must be skilled in both oral and written communication in English, able to work independently as well as in collaboration with others, and be highly motivated

Deadline for applications: Jan 31, 2023

Employer: Umeå University

Brief description:
Tracking the global spread of bacterial pathogens using whole-genome sequencing data. The movement of humans, animals, and commodities can contribute to the global dissemination of bacterial pathogens. High-resolution technologies, such as whole-genome sequencing (WGS), are thus being used increasingly to monitor the global spread of bacterial pathogens. Here, the PhD student will develop and apply bioinformatic approaches, which can leverage bacterial WGS data to gain insight into pathogen virulence potential, evolution, dissemination, transmission dynamics, and antimicrobial resistance acquisition.

You who are admitted to doctoral studies at the Faculty of Medicine will be part of the faculty-wide doctoral education programme. The doctoral programme comprises 25 credits and is offered in two study variants: 25 credits spread over 8 terms (a total of 4 years) or over 12 terms (a total of 6 years), starting each autumn and spring semester.

Eligibility and Qualifications:

• You must have at least 240 higher education credits (hc), of which at least 60 hc are at an advanced level, in natural sciences, or life sciences, or engineering.
• Applicants must be skilled in both oral and written communication in English, able to work independently as well as in collaboration with others, and be highly motivated.

Deadline for applications: Jan 31, 2023

Employer: Umeå University

Brief description:
Antimikrobiell resistens är ett av de största hoten mot mänskligheten i dag, och det finns en oro för att användning av antimikrobiella medel i djurmiljöer kan bidra till uppkomsten och spridningen av bakteriella patogener för antimikrobiell resistens längs livsmedelskedjan. Här kommer postdoktorn att utveckla och tillämpa bioinformatiska metoder, som kan fråga data om helgenomsekvensering (WGS) härledda från livsmedelsburna zoonotiska patogener (t.ex. Salmonella enterica, Escherichia coli) för att övervaka spridningen av AMR-patogener mellan boskap, livsmedel och människor

Valbarhet
Behörig att anställas som postdoktor är den som har avlagt doktorsexamen eller utländsk examen och som bedöms motsvara en datadriven epidemiologi som postdoktor. Detta behörighetskrav ska vara uppfyllt senast vid den tidpunkt då anställningsbeslutet fattas.

Sökande måste:
Ha en doktorsexamen, helst i bioinformatik, beräkningsbiologi, (bio) statistik, (tillämpad) matematik, datavetenskap eller ett relaterat område; Sökande uppmuntras också att ansöka.Ha goda kunskaper i U från andra områden med starka programmerings- / kodningskunskaper (se nedan) NIX-skalskript, plus ett annat relevant språk (t.ex. Python, R).

Ha goda kunskaper i engelska i tal och skrift.Var bekväm med att arbeta i en mångsidig, inkluderande, tvärvetenskaplig och mycket samarbetsinriktad miljö.

Deadline for applications: Jan 31, 2023

Employer: Uppsala University

Brief description:
In the face of the current global biodiversity crisis, we urgently need accurate predictions of how organisms and ecosystems respond to climatic change. Insights into the genomics of adaptation to climate change forms part of the foundation for making such predictions. For example, there are several knowledge gaps in predicting the potential for temperature tolerance to evolve, including interpretation of signatures left by natural selection on thermal adaptation in the genome, detection of which metabolic pathways are involved, revealing how interactions among genetic loci affect climate adaptation and how eco-evo dynamics affect higher level processes such as carbon cycles at the ecosystem level. By using amenable study systems, next generation sequencing methods and other omics methods, experiments and appropriate modelling, such gaps in knowledge can be filled. We search for an assistant professor with research experience within this field, that can capitalize on the breath of expertice at the department to develop their research profile at the department of Ecology and Genetics.

The position is funded by SciLifeLab and comes with a generous start up package that will allow for the recruitment of a team.

Duties

• Research, teaching, and administration. Teaching duties include course responsibility and course administration and supervision of second- and third-cycle students.
• Follow developments within the subject area and the development of society in general that is important for the work at the university.

Deadline for applications: Feb 6, 2023

Employer: Uppsala University

Brief description:
Specifika arbetsuppgifter för tillämpningsexperter är personberoende. Den här rollen riktar sig dock mot granskning av projektansökningar, skriptning- och programmeringsuppgifter för internt bruk, samt dokumentering.

Allmänna arbetsuppgifter för tillämpningsexpertgruppen inkluderar avancerat användarstöd, installation av programvara och databasresurser, underhåll och utveckling av den digitala forskningsmiljön vid UPPMAX och andra SNIC-centra, undervisning av användargrupper inom relevanta ämnen, skriptning av verktyg för externt eller internt bruk, utredningsarbeten, samt granskning av projektansökningar och effektivitetsanalys av pågående projekt.

Deadline for applications: Feb 11, 2023

Employer: Stockholm University

Brief description:
These two doctoral projects involve optimisation and application of analytical methods and data processing workflows based on nontarget mass spectrometry of air samples collected globally (funded by FORMAS) or in human biofluids (funded by VR and SciLifeLab). Research will include optimization of sample preparation steps, and the development of data processing strategies using open science tools for identification of unknown molecules in complex samples, with emphasis on quality control at all stages. The projects can make use of GC- and LC-Orbitrap technology available at ScilifeLab in the Exposomics group. The research positions are funded for 4 years and you will work as part of a bigger team involving international research scientists to understand the sources of environmental chemical exposures.

Deadline for applications: Feb 13, 2023

Employer: Uppsala University

Brief description:
The unit for Molecular Tools and Functional Genomics, now recruiting a postdoc, is active at the international forefront of research to develop advanced technologies for biomedical investigations at levels of DNA, RNA and protein. Several of their earlier techniques have enjoyed broad uptake world-wide and have been successfully commercialized by licensees and by companies with a total industrial workforce of around 900, founded by present or earlier members of the lab. The present postdoctoral position is funded by a so-called proof of concept grant from the Swedish Research Council for infection diagnostics. The effective workplace of the successful applicant will be Uppsala Biomedical Center, but the project will be conducted in close collaboration with the company Rarity https://raritybioscience.com, previously spun out from the lab, and so far focusing on molecular follow-up of cancer patients. The company is located one floor below the research lab.

Deadline for applications: Mar 1, 2023

Employer: Uppsala University

Brief description:
Research on fundamental models and methods in machine learning and their applications within medicine. The position is part of an ERC Advanced Grant focused on developing decision support for the emergency room. The work will be done in close collaboration with our medical partner Professor Johan Sundström who leads the Anders Wiklöf Institute for Heart Research. We already share offices and our groups have collaborated for quite some time.

The postdoctoral position will intensify our work on developing and analyzing methods in machine learning and their application within medicine. We will continue our work on extracting knowledge from large-scale ECG data sets, and we will utilize large databases with electronic health records and patient-reported data and three-dimensional symptom drawings. The aim is to be able to investigate the use of these models for decision support and the position can also include work on decision algorithms. Technical keywords for the position include: probabilistic models, decision making algorithms, deep learning, Bayesian inference and precision medicine. The position might also include teaching.

Deadline for applications: Mar 15, 2023

Employer: Umeå University

Brief description:
No specific deadline given for application. Please check out the website for details.

Deadline for applications: Mar 15, 2023

Employer: Umeå University

Brief description:
No specific deadline given for application. Please check out the website for details.

Deadline for applications: Mar 31, 2023

Employer: Umeå University

Brief description:
A postdoc position has become available. The formal applications process will start shortly. If you want to know more, get in touch or just send a CV and cover letter explaining your motivation to oliver.billker@umu.se

Please note that the deadline is approximate, the position witll be open until filled.

These are examples of the type of work we like to do. Don’t hesitate to get in touch with oliver.billker@umu.se to discuss. The lab would like to attract a broad set of interests and skills to at these questions and we like to collaborate across disciplines. There are opportunities to use traditional genetic and biochemical techniques, to apply machine learning approaches to reveal insights from large datasets, or to use our cutting edge facilities in cryoEM, single cell genomics and metabolimics to get at parasite vector interactions.

1. Using our unique ability to carry out forward genetics screens (Bushell et al., 2017), we have now identified hundreds of fertility genes. From this, many opportunities have emerged to dissect the molecular mechanisms of reproduction and transmission of malaria parasites. You can delve into the details of fertilisation or meiosis, or you could devise secondary screens to stratify our hits further. Either way, you will be able to gain deep insights into how malaria transmission works and how it could be blocked. You will also contribute to our understanding how sex has evolved in the first eukaryote.
2. Mechanisms of post transcriptional regulation during Plasmodium sex determination. Our screen of sexual determination and development genes (Russell et al., 2023) has opened up fascinating questions of how gene regulation controls development in divergent eukaryote. There are some startling parallels with germ line determination in animals that we want to explore further.
3. Single Cell Biology of Malaria Transmission. We have established single cell genomics methods to study mosquito tissues and how they interact with malaria parasites (e.g. Raddi et al., 2020). This now opens up avenues to get at how malaria parasites infect cells of the midgut and the salivary gland, how they mature inside their vector and how the mosquitoes respond.

Deadline for applications: Mar 31, 2023

Employer: Umeå University

Brief description:
Driven individuals who want to develop a PhD project in the broad research areas listed below are encouraged to send a CV and cover letter explaining their motivation to oliver.billker@umu.se.

Please note that the deadline is approximate, the position witll be open until filled.

These are examples of the type of work we like to do. Don’t hesitate to get in touch with oliver.billker@umu.se to discuss. The lab would like to attract a broad set of interests and skills to at these questions and we like to collaborate across disciplines. There are opportunities to use traditional genetic and biochemical techniques, to apply machine learning approaches to reveal insights from large datasets, or to use our cutting edge facilities in cryoEM, single cell genomics and metabolimics to get at parasite vector interactions.

1. Using our unique ability to carry out forward genetics screens (Bushell et al., 2017), we have now identified hundreds of fertility genes. From this, many opportunities have emerged to dissect the molecular mechanisms of reproduction and transmission of malaria parasites. You can delve into the details of fertilisation or meiosis, or you could devise secondary screens to stratify our hits further. Either way, you will be able to gain deep insights into how malaria transmission works and how it could be blocked. You will also contribute to our understanding how sex has evolved in the first eukaryote.
2. Mechanisms of post transcriptional regulation during Plasmodium sex determination. Our screen of sexual determination and development genes (Russell et al., 2023) has opened up fascinating questions of how gene regulation controls development in divergent eukaryote. There are some startling parallels with germ line determination in animals that we want to explore further.
3. Single Cell Biology of Malaria Transmission. We have established single cell genomics methods to study mosquito tissues and how they interact with malaria parasites (e.g. Raddi et al., 2020). This now opens up avenues to get at how malaria parasites infect cells of the midgut and the salivary gland, how they mature inside their vector and how the mosquitoes respond.

Deadline for applications: Mar 31, 2023

Employer: Stockholm University

Brief description:
Contact me for eventual Master’s or Bachelors’s projects within algorithms in Life Sciences and Bioinformatics. Please mention your academic background and include the courses you took and your grades. I expect you to have knowledge about programming and be highly motivated.

Please note that the deadline is approximate, the position will be open until filled.

Deadline for applications: Mar 31, 2023

Employer: Stockholm University

Brief description:
We are located in Stockholm at the Science for Life Laboratory. Our research interests broadly span algorithm development and analysis of sequence data. We have ongoing projects on method development for rapid sequence mapping and sequence similarity searches, and various computational problems in transcriptomic analysis, and collaborative projects in genome assembly. We also consider your project proposals if it aligns with the group’s research programs.

Please note that the deadline is approximate, the position will be open until filled.

Deadline for applications: Jun 15, 2023

Employer: Umeå University

Brief description:
Master thesis projects offered by Henriksson lab, Umeå University. No specific deadline given for application.

Deadline for applications: Jun 15, 2023

Employer: Linköping University

Brief description:
*No official deadline, check listing webpage for updates.

*We welcome contact from Master’s students that are interested in doing projects within the group. We do not advertise specific Master’s projects, but we will always have several available, linked to our various research themes. If you have specific research interests, let us know and we will try to tailor the project to you.