BEGIN:VCALENDAR
VERSION:2.0
PRODID:-//SciLifeLab - ECPv6.15.20//NONSGML v1.0//EN
CALSCALE:GREGORIAN
METHOD:PUBLISH
X-WR-CALNAME:SciLifeLab
X-ORIGINAL-URL:https://www.scilifelab.se
X-WR-CALDESC:Events for SciLifeLab
REFRESH-INTERVAL;VALUE=DURATION:PT1H
X-Robots-Tag:noindex
X-PUBLISHED-TTL:PT1H
BEGIN:VTIMEZONE
TZID:Europe/Stockholm
BEGIN:DAYLIGHT
TZOFFSETFROM:+0100
TZOFFSETTO:+0200
TZNAME:CEST
DTSTART:20210328T010000
END:DAYLIGHT
BEGIN:STANDARD
TZOFFSETFROM:+0200
TZOFFSETTO:+0100
TZNAME:CET
DTSTART:20211031T010000
END:STANDARD
BEGIN:DAYLIGHT
TZOFFSETFROM:+0100
TZOFFSETTO:+0200
TZNAME:CEST
DTSTART:20220327T010000
END:DAYLIGHT
BEGIN:STANDARD
TZOFFSETFROM:+0200
TZOFFSETTO:+0100
TZNAME:CET
DTSTART:20221030T010000
END:STANDARD
BEGIN:DAYLIGHT
TZOFFSETFROM:+0100
TZOFFSETTO:+0200
TZNAME:CEST
DTSTART:20230326T010000
END:DAYLIGHT
BEGIN:STANDARD
TZOFFSETFROM:+0200
TZOFFSETTO:+0100
TZNAME:CET
DTSTART:20231029T010000
END:STANDARD
END:VTIMEZONE
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20220821T080000
DTEND;TZID=Europe/Stockholm:20220902T170000
DTSTAMP:20260507T193035
CREATED:20220328T095502Z
LAST-MODIFIED:20220406T145719Z
UID:10000571-1661068800-1662138000@www.scilifelab.se
SUMMARY:Integrative Structural Biology Course
DESCRIPTION:InfraLife is preparing a course in integrative structural biology where we cover not only the basics of state-of-the-art structural biology techniques\, but also how to combine the information to address a biological question. The course will take place in August 21-September 2\, in Lund\, Gothenburg and Stockholm. \n\n\n\nRead more\n\n\n\napply now!\n\n\n\nWhat will the course cover? \n\n\n\nThe two week course is a joint effort between the three large-scale research infrastructures SciLifeLab\, MAX IV and ESS and additional related platforms. The aim is to give an overview of the structural biology available at the research infrastructures in Sweden. The course will focus on understanding the sample requirements\, the nature of structural information that can be obtained and how data from multiple structural biology methods can be combined using e.g. computational chemistry techniques. The course consists of lectures\, key note speakers\, modelling practicals and facility visits. In addition events allowing time for networking within the group of students\, the teachers and other infrastructure personnel\, contributing to an expanded professional network. \n\n\n\nTechnologies and methods \n\n\n\nMacromolecular X-ray and neutron crystallographySmall angle X-ray and neutron scatteringCryo-electron microscopyMacromolecular nuclear magnetic resonance spectroscopyStructural mass spectrometryComputational chemistry techniquesBiophysical characterization \n\n\n\nWho should attend? \n\n\n\nThe course is open to scientists of all age from academia\, health care and industry. Level approximately corresponding to PhD student or postdoc depending on experience. Applicants welcome from Sweden\, the Nordics\, and other countries.
URL:https://www.scilifelab.se/event/integrative-structural-biology-course/
CATEGORIES:Course
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2021/05/Infralife-square.jpg
ORGANIZER;CN="InfraLife":MAILTO:events@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20220829T080000
DTEND;TZID=Europe/Stockholm:20220902T170000
DTSTAMP:20260507T193035
CREATED:20220524T092955Z
LAST-MODIFIED:20220714T084938Z
UID:10000616-1661760000-1662138000@www.scilifelab.se
SUMMARY:Spatial omics data analysis
DESCRIPTION:This workshop provides resources to advanced tools for analysis of spatial datasets via a series of online lectures and computer practicals. The total course duration is 40 hours\, including the online lectures and practical coding workshop that will be held online. \n\n\n\nImportant dates\n\n\n\nApplication open: 2022-05-20 \n\n\n\nApplication deadline: 2022-07-31 \n\n\n\n\n\n\n\nCourse Leaders\n\n\n\nPaulo CzarnewskiChristophe Avenel\n\n\n\n\n\n\n\nLecturers and content creators\n\n\n\nLars BormCarolina WählbyGiovanni PallaNaveed IshaqueAnna SchaarDavid FischerHanna SpitzerSergio SallasÅsa BjörklundSebastian TiesmeyerLudvig BergenstråleEduard Chelebian\n\n\n\n\n\n\n\nContact information and Application\n\n\n\n\n\n\n\n\nCourse website\n\n\n\nEmail\n\n\n\nApplication\n\n\n\n\n\n\n\n\nCourse fee\n\n\n\nThis workshop is free of charge. \n\n\n\n\n\n\n\nCourse content\n\n\n\nTopics covered will include \n\n\n\nHands-on experience with ST (Visium)\, ISS\, scRNAseq data analysisFluorescence-based image formats\, standards and quality controlImage alignment\, registration and ISS decodingNuclei-based and segmentation-free cell identificationData imputation using ISS and single cell datasetsAnalysis of Spatial Transcriptomics datasetCell-type deconvolution (ST and single cell)Cell-cell and ligand-receptor interaction analysisMapping of multiple spatial data to a common referenceHigh-resolution projection of gene expression to H&E imagesInteractive visualisation of spatial omics data\n\n\n\n\n\n\n\nWho can apply?\n\n\n\nThis is an international course hosted by the National Bioinformatics Infrastructure Sweden (ELIXIR-SE) in collaboration with the Human Developmental Cell Atlas (HDCA)\, the Royal Institute of Technology\, Stockholm University\, Karolinska Institutet\, Uppsala University\, Charité Clinical University (ELIXIR-DE)\, Helmholtz Munich (Germany) and the European Molecular Biology Organisation. The course is open for PhD students\, postdocs\, group leaders and core facility staff working on spatial omics technologies. \n\n\n\nPlease note that NBIS training events do not provide any formal university credits. The training content is estimated to correspond to a certain number of credits\, however the estimated credits are just guidelines. If formal credits are crucial\, the student needs to confer with the home department before submitting a course application in order to establish whether the course is valid for formal credits or not. \n\n\n\nPractical exercises will be performed in Python\, so we only accept students that fulfill the entry requirements (see below). \n\n\n\n\n\n\n\nEntry requirements\n\n\n\nRequired for being able to follow the course and complete the practical exercises: \n\n\n\nBasic knowledge in PythonBe able to use your own computer with a web cameraHave miniconda3 installed in your computerDesirable: Previous experience with single cell RNA-seq analysis is an advantage.If we receive more applications\, participants will be selected based on several criteria. Selection criteria include correct entry requirements\, motivation to attend the course as well as gender and geographical balance.\n\n\n\nDue to limited space the course can accommodate a maximum of 32 participants. If we receive more applications\, participants will be selected based on several criteria. Selection criteria include correct entry requirements\, motivation to attend the course as well as gender and geographical balance.
URL:https://www.scilifelab.se/event/spatial-omics-data-analysis/
LOCATION:Online event via Zoom
CATEGORIES:Course
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2022/03/AdobeStock_218922152_front-scaled.jpg
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20220831T090000
DTEND;TZID=Europe/Stockholm:20220902T130000
DTSTAMP:20260507T193035
CREATED:20220511T071103Z
LAST-MODIFIED:20220511T071340Z
UID:10000604-1661936400-1662123600@www.scilifelab.se
SUMMARY:Snakemake BYOC (bring-your-own-code) workshop (ONLINE)
DESCRIPTION:National workshop open for PhD students (prioritized)\, postdocs\, researchers and others from all Swedish universities who have previously participated in the NBIS Tools for reproducible research course or with demonstrated experience in writing Snakemake workflows. \n\n\n\n\n\n\nCOURSE WEBSITE\n\n\n\nREGISTRATION\n\n\n\n\n\n\n\n\nImportant dates\n\n\n\nApplication opens:  May 15 \n\n\n\nApplication closes: June 17 \n\n\n\nConfirmation to accepted students:  June 28 \n\n\n\nResponsible teachers:  Verena Kutschera\, John Sundh\, Per Unneberg\, Marcel Martin \n\n\n\nContact information: edu.byoc-snakemake@nbis.se \n\n\n\n\n\n\n\nWorkshop fee\n\n\n\nThis online training event has no fee. However\, if you accept a position at the workshop and do not participate (no-show) you will be invoiced 1\,700 SEK. \n\n\n\n*Please note that NBIS cannot invoice individuals \n\n\n\n\n\n\n\nWorkshop content\n\n\n\nAs data analysis projects grow and change over time\, it gets increasingly difficult to keep track of how the different parts of the data analysis fit together. Workflow management systems such as Snakemake can be used to set up\, perform and monitor defined sequences of computational tasks (“workflows”)\, thereby making data analyses reproducible and scalable. Snakemake was developed in the bioinformatics community and has some features that make it particularly well suited for bioinformatics workflows. \n\n\n\nThe NBIS Tools for reproducible research course is held twice a year and provides an introduction into Snakemake and a tutorial to learn how to use Snakemake.This Snakemake BYOC (bring-your-own-code) workshop provides a follow-up to that introduction. Here\, participants will get support from experienced bioinformaticians to A) convert their data analysis from a programming language such as bash\, R or python into a Snakemake workflow\, or B) apply more advanced techniques to their existing Snakemake workflows. \n\n\n\n\n\n\n\nLearning outcomes\n\n\n\nAfter participation in the BYOC workshop\, participants will: \n\n\n\nBe able to create Snakemake workflows for bioinformatics data analysisDemonstrate knowledge of the structure and syntax of different types of Snakemake workflowsDemonstrate knowledge of advanced features of the Snakemake workflow language\n\n\n\n\n\n\n\nEntry requirements\n\n\n\nPrevious participation in the NBIS Tools for reproducible research workshop. The workshop is also open for participants who can demonstrate experience in writing Snakemake workflowsYour own bioinformatics analysis scripts in any programming language that you would like to convert into Snakemake OR your own Snakemake workflow that you would like to improveA computer with a webcam running Linux or Mac OS (if you run Windows and are accepted as a participant\, additional setup will be required). You will be asked to install the video conferencing software zoom (https://zoom.us/) to be able to participate in the workshop.\n\n\n\nThe workshop can accommodate a maximum of 16 participants. Selection criteria include correct entry requirements\, motivation to attend the workshop as well as gender and geographical balance. Academic affiliated registrants are prioritized prior to participants from the industry.
URL:https://www.scilifelab.se/event/snakemake-byoc-bring-your-own-code-workshop-online-2/
LOCATION:Online event via Zoom
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20220907T080000
DTEND;TZID=Europe/Stockholm:20220909T170000
DTSTAMP:20260507T193035
CREATED:20220811T104626Z
LAST-MODIFIED:20220822T124149Z
UID:10000642-1662537600-1662742800@www.scilifelab.se
SUMMARY:Workshop on Data Visualization in R - Lund - CANCELLED
DESCRIPTION:National course open for PhD students (prioritized)\, postdocs\, researchers and other employees within all Swedish universities interested in learning to plot using different packages in R – CANCELLED \n\n\n\nThe course is organized by NBIS (ELIXIR-SE). \n\n\n\nResponsible teachers: Lokeshwaran Manoharan\, Louella Vasquez\, Markus Ringner \n\n\n\nContact information: edu.plotting.r@nbis.se \n\n\n\n\n\n\n\nImportant dates\n\n\n\nApplication open: Jul 28\, 2022 \n\n\n\nApplication deadline: Aug 21\, 2022 \n\n\n\nConfirmation to accepted participants: Aug 25\, 2022 \n\n\n\n\n\n\n\n\n\nApplication\n\n\n\n\n\nCourse website (previous version)\n\n\n\n\n\n\n\n\n\n\n\n\n\nCourse fee\n\n\n\nThis training event has no fee. However\, if you accept a position at the workshop and do not participate (no-show) you will be invoiced * 2000 SEK. \n\n\n\nA course fee* of 1300 SEK will be invoiced to accepted participants. This includes 3 lunches\, 1 dinner\, coffee and cakes. \n\n\n\n*Please note that NBIS cannot invoice individuals \n\n\n\n\n\n\n\nCourse description\n\n\n\nThis course aims to help researchers to visualize their data in different ways using R. This course will also aim to show researchers how they can make publication grade figures using R. A part of this course is also about making interactive plots that the researchers can view and share in a web-server to make interactive visualizations of the data. \n\n\n\n\n\n\n\nCourse content\n\n\n\nIn this course you will learn how to visualize your data in R. \n\n\n\nIn particular\, you will learn: \n\n\n\n·          how to format the data necessary for ggplot \n\n\n\n·          how to make bar-charts\, box-plots and others using ggplot \n\n\n\n·          how to make PCA plots in ggplot \n\n\n\n·          how to use R packages for heatmaps \n\n\n\n·          how to plot data on maps using R (optional) \n\n\n\n·          how to plot and handle phylogenetic trees in R (optional) \n\n\n\n·          how to make interactive plots in R using Rshiny \n\n\n\n·          how to host a Rshiny app in one of the available servers \n\n\n\n\n\n\n\nLearning outcomes\n\n\n\nBy the end of the course the participant will be able to: \n\n\n\n·          handle data in R for visualizations \n\n\n\n·          apply the grammar efficiently in ggplot to get the desired plot \n\n\n\n·          combine different data and/or different plots that are of publication-grade \n\n\n\n·          write your own simple Rshiny app \n\n\n\n·          deploy Rshiny apps in public servers.  \n\n\n\n\n\n\n\nEntry requirements\n\n\n\nRequired for being able to follow the course and to complete computer exercises: \n\n\n\nfamiliarity with using R and Rstudioa computer with R and Rstudioyou will be asked to install different R packages necessary for the course prior to the course. \n\n\n\n\n\n\n\nSelection criteria\n\n\n\nThe course can accommodate 25 participants. Selection criteria include correct entry requirements\, motivation to attend the course as well as gender and geographical balance. Academic affiliated registrants are prioritized prior to participants from the industry. \n\n\n\nPlease note that NBIS training events do not provide any formal university credits. The training content is estimated to correspond to a certain number of credits\, however the estimated credits are just guidelines. If formal credits are crucial\, the student needs to confer with the home department before submitting a course application in order to establish whether the course is valid for formal credits or not.
URL:https://www.scilifelab.se/event/workshop-on-data-visualization-in-r-lund-2/
LOCATION:Biologihuset\, Sölvegatan 35\, Lund\, 223 62\, Sweden
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20220911T080000
DTEND;TZID=Europe/Stockholm:20220916T170000
DTSTAMP:20260507T193035
CREATED:20220420T142106Z
LAST-MODIFIED:20220530T135853Z
UID:10000586-1662883200-1663347600@www.scilifelab.se
SUMMARY:Exploring the Human Proteome with Antibodies\, Transcriptomics and Mass Spectrometry
DESCRIPTION:The summer school is aimed at graduate students\, post-docs\, and young independent investigators who want to learn about new techniques to explore the proteins encoded by the human genome. The course will teach state-of-the-art analysis of the human proteins with a focus on antibody-based methods\, transcriptomics and mass spectrometry. The course will have several daily lectures by experts in the field and this will be complemented with workshops in which the participants will annotate genes/proteins. Each participant will take part in an annotation effort with the aim to go through all experimental evidence of the respective protein and to evaluate the quality of the underlying data to score the evidence for protein profiles and functionality. \n\n\n\nRead more\n\n\n\nThe course will be held at the Science for Life Laboratory located at the campus of Karolinska Institutet in proximity of the city center of Stockholm\, hosting researchers in the field of molecular bioscience affiliated with Karolinska Institutet\, Royal Institute of Technology and Stockholm University. The center has infrastructures for life science\, such as next generation sequencing\, proteomics\, single cell genomics\, bioimaging\, cryo-EM\, protein expression\, antibody engineering\, bioinformatics and systems biology. Accommodation and meals will be provided by the organizers. Social evenings and joined meals will provide ample opportunities for informal exchange with lecturers. \n\n\n\nMathias UhlenChair\, Organization Committee
URL:https://www.scilifelab.se/event/exploring-the-human-proteome-with-antibodiestranscriptomics-and-mass-spectrometry/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Course
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2022/04/FEBS-Advanced-course.png
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20220912T080000
DTEND;TZID=Europe/Stockholm:20220916T170000
DTSTAMP:20260507T193035
CREATED:20220511T090525Z
LAST-MODIFIED:20220511T110221Z
UID:10000605-1662969600-1663347600@www.scilifelab.se
SUMMARY:Introduction to biostatistics and machine learning
DESCRIPTION:National course open for PhD students\, postdocs\, researchers and other employees in need of biostatistical skills within all Swedish universities. The course is geared towards life scientists wanting to be able to understand and use basic statistical methods. It would also suit those already applying biostatistical methods but have never got a chance to reflect on and truly grasp the basic statistical concepts\, such as the commonly misinterpreted p-value. \n\n\n\nImportant dates\n\n\n\nApplication open: now \n\n\n\nApplication closes: 2022-08-14 \n\n\n\nConfirmation to accepted students:  2022-08-19 \n\n\n\nResponsible teachers:  Olga Dethlefsen\, Eva Freyhult \n\n\n\nIf you do not receive information according to the above dates please contact \n\n\n\nedu.ml-biostats@nbis.se\, olga.dethlefsen@nbis.se\, eva.freyhult@nbis.se \n\n\n\n\n\n\n\n\nCOURSE WEBSITE\n\n\n\nAPPLICATION\n\n\n\n\n\n\n\n\nCourse content\n\n\n\nProbability theoryHypothesis testing and confidence intervalsResamplingLinear regression methodsIntroduction to generalized linear modelsModel evaluationUnsupervised learning incl. clustering and dimension reduction methodsSupervised learning incl. classification\n\n\n\n\n\n\n\nEducation\n\n\n\nIn this course we focus on an active learning approach. The course participants are expected to do some pre-course reading and exercises\, corresponding up to 40h studying. The education consists of teaching blocks alternating between mini-lectures\, group discussions\, live coding sessions etc. \n\n\n\n\n\n\n\nEntry requirements\n\n\n\nBasic R programming skillsBYOL (bring your own laptop) with R and RStudio installedNo prior biostatistical knowledge is assumed\n\n\n\nThe course can accommodate a maximum of 24 participants. If we receive more applications\, participants will be selected based on several criteria. Selection criteria include correct entry requirements\, motivation to attend the course as well as gender and geographical balance. \n\n\n\nCourse fee\n\n\n\n2000 SEK (includes lunches and coffee) \n\n\n\n*Please note that NBIS cannot invoice individuals
URL:https://www.scilifelab.se/event/introduction-to-biostatistics-and-machine-learning/
LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20220926T080000
DTEND;TZID=Europe/Stockholm:20220930T170000
DTSTAMP:20260507T193035
CREATED:20220523T075158Z
LAST-MODIFIED:20220523T100120Z
UID:10000614-1664179200-1664557200@www.scilifelab.se
SUMMARY:Introduction to bioinformatics using NGS data
DESCRIPTION:This is a national workshop open to PhD students\, post-docs\, and other researchers affiliated to Swedish academia and healthcare. The workshop is organised by the National Bioinformatics Infrastructure Sweden (NBIS) and National Genomics Infrastructure (NGI). \n\n\n\nThis intense one-week workshop provides an introduction to the analysis of next generation sequencing data. Lectures on the theory of concepts will be paired with practical computational exercises in the Linux environment. The practical exercises will focus on data from the Illumina platform\, but we will discuss other sequencing platforms and the advantages and challenges to using their data during the lectures. \n\n\n\nNBIS training events do not provide any formal university credits. Attendees with full attendance and completion of tasks will be issued a certificate of participation indicating topics covered and duration of the workshop. For more detailed information about workshop syllabus\, learning outcomes and entry requirements\, please visit the workshop website. \n\n\n\nImportant dates\n\n\n\nWorkshop: 26-Sep-2022 – 30-Sep-2022 \n\n\n\nApplication opens: 23-May-2022 \n\n\n\nApplication closes: 19-Aug-2022 \n\n\n\nConfirmation to accepted students: 26-Aug-2022 \n\n\n\nCourse fee\n\n\n\nThis on-site training event costs 2000 SEK invoiced to the participant’s organisation. If you accept a position and do not participate (no-show) you will still be invoiced 2000 SEK. Please note that NBIS cannot invoice individuals. \n\n\n\nContact\n\n\n\nnbis.se \n\n\n\nMalin Larsson\, Martin Dahlö\, Roy Francis \n\n\n\n\n\n\n\n\nWorkshop Website\n\n\n\nApplication
URL:https://www.scilifelab.se/event/introduction-to-bioinformatics-using-ngs-data/
LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
END:VCALENDAR