BEGIN:VCALENDAR VERSION:2.0 PRODID:-//SciLifeLab - ECPv6.15.18//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:20200329T010000 END:DAYLIGHT BEGIN:STANDARD TZOFFSETFROM:+0200 TZOFFSETTO:+0100 TZNAME:CET DTSTART:20201025T010000 END:STANDARD 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 END:VTIMEZONE BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210930T130000 DTEND;TZID=Europe/Stockholm:20210930T140000 DTSTAMP:20260407T135401 CREATED:20210824T114436Z LAST-MODIFIED:20210914T135326Z UID:10000414-1633006800-1633010400@www.scilifelab.se SUMMARY:Campus Solna Seminar Series: Florian Weber and Krzysztof Szkop DESCRIPTION:Welcome to join the Campus Solna Seminar Series – an initiative to promote the fantastic science ongoing at Campus Solna and hopefully forge more internal communication and collaboration between within Campus Solna. The format consists of two 15 min talks (One speaker from the Alpha-building and one from the Gamma-building respectively)\, with an additional 5 min of questions. Presentation of ongoing (unpublished) projects is strongly encouraged. \n\n\n\nThe seminars are held Thursdays 13:00-13:50 and following current regulations\, they will be broadcast via zoom. \n\n\n\n \n\n\n\nThis week\n\n\n\nLipoprotein particles are able to interact and alter lipid membranesFlorian Weber (Erdinc Sezgin\, Gamma 3) \n\n\n\nStress-induced perturbations in intracellular amino acids reprogram mRNA translation in osmoadaptation independently of ISRKrzysztof Szkop (Ola Larsson\, Gamma 5) \n\n\n\nRegistration\n\n\n\nRegister to receive the zoom-link. The same zoom link applies for all Campus Solna Seminar Series\, i.e. only one registration is necessary. URL:https://www.scilifelab.se/event/campus-solna-seminar-series-florian-weber-and-krzysztof-szkop/ CATEGORIES:Community ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210929T090000 DTEND;TZID=Europe/Stockholm:20211001T130000 DTSTAMP:20260407T135401 CREATED:20210615T081112Z LAST-MODIFIED:20210615T090743Z UID:10000401-1632906000-1633093200@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\n\n\nCourse website\n\n\n\nCourse application\n\n\n\n\n\n\n\n\nImportant dates \n\n\n\nApplication opens:  June 15 \n\n\n\nApplication closes: August 31 \n\n\n\nConfirmation to accepted students:  September 3 \n\n\n\nResponsible teachers:  Verena Kutschera\, John Sundh\, Per Unneberg \n\n\n\nContact information: edu.byoc-snakemake@nbis.se \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\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. \n\n\n\nThis 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\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/ CATEGORIES:Course ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210928T151500 DTEND;TZID=Europe/Stockholm:20210928T163000 DTSTAMP:20260407T135401 CREATED:20210923T094943Z LAST-MODIFIED:20210923T122525Z UID:10000453-1632842100-1632846600@www.scilifelab.se SUMMARY:The Svedberg seminar series: Prof. Ana Pombo DESCRIPTION:MDC Berlin Institute for Medical Systems Biology (BIMSB) \, Humboldt University\, Germany \n\n\n\nLINK TO SEMINAR \n\n\n\n\n\n\n\n\n\nAna Pombo investigates mechanisms that regulate 3D genome folding and gene expression during mammalian  development and in disease. After her doctorate work at the University of Oxford (UK)\, Ana was a recipient of a Royal Society Dorothy Hodgkin Fellowship. She started her independent group in 2000\, at the MRC London Institute for Medical Sciences\, Imperial College London\, before moving to the Max Delbrueck Center for Molecular Medicine in Berlin\, in Germany. Ana received the Robert Feulgen Prize in 2007\, and was elected EMBO member in 2018. She is a Professor at the Humboldt University of Berlin and the Deputy Scientific Directed of the Berlin Institute for Medical Systems Biology at MDC. \n\n\n\nFunctional specialization of 3D genome structures in brain cell types\n\n\n\nDuring lineage commitment\, cells sustain cascades of gene activation and repression to generate specific cell types that execute specialized functions. To investigate the variability of the 3D conformation of the genome in different cell types and their relation with cell-type specific patterns of gene expression\, we applied Genome Architecture Mapping is specific brain cell types from the adult murine brain\, without disturbing their native tissue environment: dopaminergic neurons (DNs) from the midbrain\, pyramidal glutamatergic neurons (PGNs) from the hippocampus\, and oligodendrocyte lineage cells (OLGs) from the cortex. We find extensive reorganization of genome topology\, which the reorganization of topological domains\, chromatin compartments and specific long-range hubs of contacts between neuron-specific genes. We also discover events of extensive chromatin decondensation\, or ‘melting’\, at long neuronal genes when they are highly transcribed\, many of them associated with neurodevelopmental disorders or neurodegeneration. Our work shows that the 3D organization of the genome is highly specific of cell type and strongly related with gene expression programs.Read more about Ana Pombo`s research: https://www.mdc-berlin.de/pomboHost:  Eva Brinkman\, KI URL:https://www.scilifelab.se/event/the-svedberg-seminar-series-prof-ana-pombo/ LOCATION:Online event via Zoom CATEGORIES:Event ORGANIZER;CN="The Svedberg Seminar Series":MAILTO:thesvedberg@scilifelab.uu.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210924T080000 DTEND;TZID=Europe/Stockholm:20210924T170000 DTSTAMP:20260407T135401 CREATED:20240909T095320Z LAST-MODIFIED:20240925T074739Z UID:10001349-1632470400-1632502800@www.scilifelab.se SUMMARY:Researcher’s Night at SciLifeLab DESCRIPTION:The European Researchers’ Night is a Europe-wide public event\, which displays the diversity of science and its impact on citizens’ daily lives in fun\, inspiring ways. \n\n\n\nThe European Researchers’ Night aims to \n\n\n\n\nbring research and researchers closer to the public\n\n\n\npromote excellent research projects across Europe and beyond\n\n\n\nincrease the interest of young people in science and research careers\n\n\n\nshowcase the impact of researchers’ work on people’s daily lives\n\n\n\n\nIn Sweden\, activities will be organised across the country and online under the name ForskarFredag (Researchers’ Friday) coordinated by the Swedish nonprofit organisation Vetenskap & Allmänhet \n\n\n\nRead more and register\n\n\n\n\n\nForskarfredag SciLifeLab 2024Download URL:https://www.scilifelab.se/event/researchers-night-at-scilifelab-2/ LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden CATEGORIES:Event ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2021/09/Forskarfredag.png ORGANIZER;CN="SciLifeLab Event":MAILTO:events@scilifelab.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210924T080000 DTEND;TZID=Europe/Stockholm:20210924T170000 DTSTAMP:20260407T135401 CREATED:20210908T125241Z LAST-MODIFIED:20220330T154121Z UID:10000441-1632470400-1632502800@www.scilifelab.se SUMMARY:Researcher’s Night at SciLifeLab DESCRIPTION:The European Researchers’ Night is a Europe-wide public event\, which displays the diversity of science and its impact on citizens’ daily lives in fun\, inspiring ways. This year\, the event will take place in 29 countries on Friday 24 September 2021. \n\n\n\nThe European Researchers’ Night aims to \n\n\n\nbring research and researchers closer to the publicpromote excellent research projects across Europe and beyondincrease the interest of young people in science and research careersshowcase the impact of researchers’ work on people’s daily lives\n\n\n\nIn Sweden\, activities will be organised across the country and online under the name ForskarFredag (Researchers’ Friday) coordinated by the Swedish nonprofit organisation Vetenskap & Allmänhet \n\n\n\nOpen to schools and individuals from all of over Sweden. Please register at Vetenskapens hus’ website to receive the zoom-link. \n\n\n\nRead more and register\n\n\n\nSciLifeLab will participate in Researcher’s night as part of Vetenskapens Hus program\, with a set of lectures orchestrated by the Public Engagement Committee. We invite participants from schools all over Sweden to tune in to interesting lectures by our researchers. The lectures are given in English\, are 15 minutes long and are followed by the opportunity for discussion with the researcher for another 15 minutes. They cover varying topics such as how spaceflight affect astronauts’ bodies and how different microscopical techniques can be used to study the cellular world. \n\n\n\n \n\n\n\n09:00How does spaceflight affect astronauts’ bodies?Stefania Giacomello\, KTH10:00Is weight-loss surgery properly restoring insulin response?Carsten Daub\, Karolinska Institutet/SciLifeLab11:00Cellular world observed with microscopy – in two partsErdinc Sezgin\, Karolinska Institutet/SciLifeLab\, Marta Carroni\, Stockholm University/SciLifeLab14:00Hidden treasure: an immunological master switch deep in our gutsLuisa Hugerth\, Karolinska Institutet/SciLifeLab15:00Sex differences in the immune systemCamila Rosat Consiglio\, Karolinska Institutet/SciLifeLab URL:https://www.scilifelab.se/event/researchers-night-at-scilifelab/ LOCATION:Online event via Zoom CATEGORIES:Event ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2021/09/Forskarfredag.png ORGANIZER;CN="SciLifeLab Event":MAILTO:events@scilifelab.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210923T130000 DTEND;TZID=Europe/Stockholm:20210923T140000 DTSTAMP:20260407T135401 CREATED:20210824T114259Z LAST-MODIFIED:20210908T085502Z UID:10000413-1632402000-1632405600@www.scilifelab.se SUMMARY:Campus Solna Seminar Series: Jörg Bachmann and Charlotte Stadler DESCRIPTION:Welcome to join the Campus Solna Seminar Series – an initiative to promote the fantastic science ongoing at Campus Solna and hopefully forge more internal communication and collaboration between within Campus Solna. The format consists of two 15 min talks (One speaker from the Alpha-building and one from the Gamma-building respectively)\, with an additional 5 min of questions. Presentation of ongoing (unpublished) projects is strongly encouraged. \n\n\n\nThe seminars are held Thursdays 13:00-13:50 and following current regulations\, they will be broadcast via zoom. \n\n\n\n \n\n\n\nThis week\n\n\n\nCircular chromatin confirmation capture – finding genes behind racing horse performance Jörg Bachmann (Pelin Sahlén\, Alpha 3) \n\n\n\nSpatial and single cell biology platform at Scilifelab – how can we help pushing your research forward?Charlotte Stadler\, Alpha 2 \n\n\n\n \n\n\n\n \n\n\n\nRegistration\n\n\n\nRegister to receive the zoom-link. The same zoom link applies for all Campus Solna Seminar Series\, i.e. only one registration is necessary. URL:https://www.scilifelab.se/event/campus-solna-seminar-series-jorg-bachmann-and-florian-weber/ CATEGORIES:Community ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210923T080000 DTEND;TZID=Europe/Stockholm:20210924T170000 DTSTAMP:20260407T135401 CREATED:20210628T112516Z LAST-MODIFIED:20210628T112631Z UID:10000402-1632384000-1632502800@www.scilifelab.se SUMMARY:Annual Symposium on ATP1A3 in Disease DESCRIPTION:Sweden is a child-friendly country with long traditions in pediatric care and research. We will introduce some new aspects in AHC and ATP1A3 related disease that should open up for new research projects and new therapeutic strategies. \n\n\n\nPreliminary\, our main themes will be: \n\n\n\nThe origin of gait disturbances;The origin and recording of pain;The lipid environment of the ATP1A3 molecule\n\n\n\nThe 9th Annual Symposium was originally planned to take place in October 2020\, but due to the current pandemic we unfortunately had to postpone the meeting. Detailed planning of the 2021 Symposium in Stockholm is ongoing and updates will continually be announced on this website. \n\n\n\nIn our time of Covid-19 pandemic\, we can assure possibility for social distancing in our conference venue\, Aula Medica of Karolinska Institutet Campus Solna. The main hall is approximated for up to 1\,000 persons\, and will give plenty of space for our symposium which is planned for 100-120 persons. \n\n\n\nPlease stay tuned and stay safe! \n\n\n\nOn behalf of the Organizing committee \n\n\n\nAnita Aperia      Eli Gunnarson     Hjalmar Brismar URL:https://www.scilifelab.se/event/annual-symposium-on-atp1a3-in-disease/ LOCATION:Aula Medica\, Nobels väg 6\, Solna CATEGORIES:Event ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2021/06/atp21-logo-sept-1200-2.png ORGANIZER;CN="Akademikonferens":MAILTO:ATP1A3-2021@akademikonferens.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210922T110000 DTEND;TZID=Europe/Stockholm:20210922T174500 DTSTAMP:20260407T135401 CREATED:20210830T133010Z LAST-MODIFIED:20210917T101612Z UID:10000420-1632308400-1632332700@www.scilifelab.se SUMMARY:Pushing the Frontiers 2021 DESCRIPTION:The Scientific Director for SciLifeLab-UU and the SciLifeLab-UU Committee welcomes you to Pushing the Frontiers 2021.  \n\n\n\n \n\n\n\nThis is a one-day scientific event where two SciLifeLab fellow alumni at Uppsala University and many of the 21 postdocs financed by the SciLifeLab-UU postdoc programs of 2017-2018 will share their research progress with the local SciLifeLab community.  \n\n\n\nPresentation format: Postdocs: 10 min + 5 min discussion. Fellows: 25 min+5 min discussion. \n\n\n\nOrganizers: SciLifeLab committee UU\, The SciLifeLab-UU working group: Staffan Svärd\, Jenny Alfredsson\, Titti Ekegren\, Aristidis Moustakas\, Mikael Widersten. \n\n\n\nIf you have any questions\, please contact events@SciLifeLab.se \n\n\n\n\n\n\n\nHybrid event\n\n\n\nThe event is a hybrid event. Lunch and coffee will be served in Navet. \n\n\n\nWe have 40 seats (Corona distance) in the Triple room of Navet at BMC\, Uppsala (principle of first come\, first served). To enter Navet\, please bring your QR code ticket. We care about your health. To join in person\, we want you to be fully vaccinated. If you register to be on-site but change your mind\, please adjust your registration with the link in the confirmation email. \n\n\n\nA link to the Zoom meeting and a QR code ticket to enter Navet will be provided in the confirmation email. \n\n\n\n \n\n\n\n\n\n\n\n\n\n\n\nProgram\n\n\n\n09:00WelcomeStaffan Svärd & SciLifeLab-UU CommitteeChair: Mikael Widersten09:00Single nuclei RNA-sequencing from metabolic tissuesMarco Cavalli 09:15Exploring deep human roots in south-central African ancient and modern genetic dataNina Hollfelder 09:30A time-resolved imaging-based CRISPRi screening methodDaniel Camsund09:45A novel mitochondrion-related organelle revealed through comparative genomics of the uncultured protist parasite Paramikrocytos canceri (Rhizaria\, Ascetosporea)Ioana Onut Brannström10:00Coffee break10:30Conservation of G-quadruplexes and other GC-rich regions of avian genomesJulie Blommaert 10:45Monoallelic and bi-allelic variants in NCDN cause neurodevelopmental delay\, intellectual disability\, and epilepsyAmbrin Fatima11:00Microfluidic solution for electroporation of dye-labelled biological macromolecules into E. coliZahra Atena KhajiFellows session:11:15Chemistry – Chemical Biology and biomarkersDaniel Globisch11:45Lunch breakChair: Aristidis Moustakas12:30Protein machines at single molecule levelSebastian Deindl13:00The DNA methylome of adult and pediatric relapsed acute myeloid leukemiaMahsa Shahidi Dadras13:15Genomics-driven exploration of Asgard archaeal symbioses to gain insight in the origin of eukaryotesCourtney Stairs 13:30Fungal-bacterial metabolic interactions in the deep biosphereMaliheh Mehrshad13:45Development and clinical implementation of advanced technologies for detection of exosomes as biomarkers with relevance for prostate cancerLiza Löf14:00Characterizing cell origin and co-operative mutations of MYC-driven brain cancerMiao Zhao14:15Using organotypic tissue culture to decipher the host cell tropism of invasive gut bacteriaJorik van Rijn14:30CRISPR/Cas9 “multi-hit” mutations to decipher the role of heparan sulfate N-sulfation in embryonic developmentLaura Waldmann14:45Coffee breakChair: Staffan Svärd15:00Open discussionThe future of SciLifeLab (including: the postdoctoral program at UU): aims\, expectations\, achievements\, future perspectives. We want to hear your thought on the future of SciLifeLab at UU.15:30Concluding remarksStaffan Svärd & SciLifeLab-UU Committee15:45End of day URL:https://www.scilifelab.se/event/pushing-the-frontiers-2021/ LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden CATEGORIES:Event ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2021/08/MG_8501-scaled.jpg END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210920T151500 DTEND;TZID=Europe/Stockholm:20210920T163000 DTSTAMP:20260407T135401 CREATED:20210816T082333Z LAST-MODIFIED:20210916T154406Z UID:10000407-1632150900-1632155400@www.scilifelab.se SUMMARY:The Svedberg seminar series: Assoc. Prof. Daniel Globisch DESCRIPTION:SciLifeLab Fellow at Uppsala University / Dept. Chem – BMC \n\n\n\nLINK TO SEMINAR \n\n\n\n\n\n\n\n\n\nAssociate Professor Daniel Globisch started his independent research group as a Science For Life Laboratory Fellow at Uppsala University. In December 2020\, Daniel Globisch received tenure and moved with his laboratory to the Department of Chemistry – BMC. He received his PhD in Organic Chemistry and Chemical Biology in 2011 at the Ludwig-Maximilians-University in Munich and joined The Scripps Research Institute\, La Jolla\, CA for his postdoctoral research in Chemical Biology and Metabolomics from 2011 to 2015. At Uppsala University\, his laboratory develops new Chemical Biology methodologies to extend the scope of metabolomics research to discover new biomarkers for pancreatic and colorectal cancer. The interdisciplinary nature of the research projects is focussed on elucidation of the metabolic interaction between the gut microbiota and their human host. \n\n\n\nExploring Gut Microbiota Metabolism – Unique Chemical Biology Tools for Metabolomics Analysis\n\n\n\nOne of the most exciting scientific developments in the past decade has been the understanding that the microbiome profoundly impacts human physiology. The complex consortium of trillions of microbes possesses a wide range of metabolic activity. This metabolic interspecies communication represents a tremendous opportunity for the discovery of unknown bioactive molecules as only limited information on this co-metabolism has been elucidated on a molecular level. Metabolomics holds a great potential for the discovery of unknown biomarkers and bioactive metabolites. Advanced Chemical Biology tools are limited compared to other ‘omics research fields. Especially\, the detailed analysis of microbial metabolism remains a major challenge and requires advanced techniques. We have developed unique Chemical Biology methodologies for enhanced analysis using liquid chromatography-coupled with tandem mass spectrometry. These tools overcome limitations in mass spectrometry-based metabolomics analysis. We apply these methods for the discovery of unknown metabolites in human samples collected from pancreatic cancer patients to evaluate their potential as biomarkers. URL:https://www.scilifelab.se/event/the-svedberg-seminar-series-assoc-prof-daniel-globisch/ LOCATION:Online event via Zoom CATEGORIES:Event ORGANIZER;CN="The Svedberg Seminar Series":MAILTO:thesvedberg@scilifelab.uu.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210916T130000 DTEND;TZID=Europe/Stockholm:20210916T140000 DTSTAMP:20260407T135401 CREATED:20210824T114217Z LAST-MODIFIED:20210903T123307Z UID:10000412-1631797200-1631800800@www.scilifelab.se SUMMARY:Campus Solna Seminar Series: August Jernbom Falk and Christian Sommerauer DESCRIPTION:Welcome to join the Campus Solna Seminar Series – an initiative to promote the fantastic science ongoing at Campus Solna and hopefully forge more internal communication and collaboration between within Campus Solna. The format consists of two 15 min talks (One speaker from the Alpha-building and one from the Gamma-building respectively)\, with an additional 5 min of questions. Presentation of ongoing (unpublished) projects is strongly encouraged. \n\n\n\nThe seminars are held Thursdays 13:00-13:50 and following current regulations\, they will be broadcast via zoom. \n\n\n\n \n\n\n\nThis week\n\n\n\nAutoantibody profiles associated with clinical features in psychotic disordersAugust Jernbom Falk (Peter Nilsson\, Alpha 2) \n\n\n\n \n\n\n\nAre female sex hormones the key to preventing liver diseases?Christian Sommerauer (Claudia Kutter\, Gamma 5) \n\n\n\nRegistration\n\n\n\nRegister to receive the zoom-link. The same zoom link applies for all Campus Solna Seminar Series\, i.e. only one registration is necessary. URL:https://www.scilifelab.se/event/campus-solna-seminar-series-sofia-bergstrom-and-christian-sommerauer/ CATEGORIES:Community ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210915T151500 DTEND;TZID=Europe/Stockholm:20210915T164500 DTSTAMP:20260407T135401 CREATED:20210907T145743Z LAST-MODIFIED:20210909T064420Z UID:10000440-1631718900-1631724300@www.scilifelab.se SUMMARY:SciLifeLab COVID-19 seminars: Cornelis Melief and Sara Mangsbo DESCRIPTION:The second seminar in this series starts with Cornelis Melief\, Emeritus professor of immunology at Leiden University and Chief Scientific Officer (CSO) of ISA Pharmaceuticals\, who will talk about T cell-based vaccination against SARS-CoV-2. \n\n\n\nSara Mangsbo\, Senior lecturer in Antibody drugs and Associate professor in Experimental clinical immunology\, Uppsala University\, then continues the seminar by talking about T cell responses to SARS-CoV-2\, what have we learned so far? \n\n\n\nHost:  Alice Sollazzo\, Project coordinator\, SciLifeLab Operations Office \n\n\n\n\n\n\n\nRegistration is mandatory to get the Zoom link for the event \n\n\n\n\n\n\n\n\nREGISTRATION\n\n\n\n\n\n\n\n\nProgram\n\n\n\n15:15T cell-based vaccination against SARS-CoV-2 Cornelis Melief\, Emeritus professor of immunology at Leiden University16:00T cell responses as SARS-CoV-2\, what have we learned so far? Sara Mangsbo\, Senior lecturer in Antibody drugs\, Uppsala University\n\n\n\nBios and abstracts\n\n\n\nDownload:Download URL:https://www.scilifelab.se/event/scilifelab-covid-19-seminars-cornelis-melief-and-sara-mangsbo/ LOCATION:Online event via Zoom CATEGORIES:Event END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210914T130000 DTEND;TZID=Europe/Stockholm:20210914T150000 DTSTAMP:20260407T135401 CREATED:20210826T065213Z LAST-MODIFIED:20210914T065424Z UID:10000415-1631624400-1631631600@www.scilifelab.se SUMMARY:The future of life science is data-driven - DDLS update and strategy DESCRIPTION:Welcome\n\n\n\nto an online meeting where the Data-driven Life Science (DDLS) strategy will be introduced and discussed. The SciLifeLab and Wallenberg National Program on Data-Driven Life Science (DDLS) program’s ongoing activities and progress of the program will also be presented.   \n\n\n\nAim\n\n\n\nThe purpose of the meeting is to introduce and discuss the DDLS strategy; to present ongoing activities and program achievements; and to engage community and stakeholders. The aim of the panel discussion and input from participants is to facilitate further development of the strategy.   \n\n\n\nTarget group\n\n\n\nWe welcome partner organizations\, collaborators nationally\, the Swedish life science community\, industry\, healthcare as well as other stakeholders in the society at large.   \n\n\n\nProgram\n\n\n\nWelcome wordsOlli Kallioniemi\, Director of SciLifeLab and DDLS program and Siv Andersson\, KAWThe initiative and its importanceHans Adolfsson\, vice-chancellor Umeå University\, chairman of HuvudmannarådetEuropean perspective\, experience from EMBLJan Korbel\, Senior Scientist Genome Biology & Head of Data Science\, EMBL HeidelbergDDLS update and presentation of DDLS strategyOlli Kallioniemi DDLS research areasEvolution and Biodiversity: Fredrik RonquistPrecision Medicine and Diagnostics: Janne LehtiöCell and Molecular Biology: Emma LundbergEpidemiology and Infection Biology: Oliver BillkerData processJohan Rung\, Head of SciLifeLab Data centrePanel discussion​​Moderator: Anna Frejd\, Communications manager\, SciLifeLabClosing wordsOlli Kallioniemi and Siv Andersson\n\n\n\n\n\n\n\nRead the strategy\n\n\n\nShare your thoughts on the strategy URL:https://www.scilifelab.se/event/the-future-of-life-science-is-data-driven-ddls-update-and-strategy/ CATEGORIES:Event ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2020/10/Map-DDLS-illustration_dove.png ORGANIZER;CN="Data-Driven Life Science @ SciLifeLab":MAILTO:ddls@scilifelab.se LOCATION:https://www.scilifelab.se/event/the-future-of-life-science-is-data-driven-ddls-update-and-strategy/ END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210913T161500 DTEND;TZID=Europe/Stockholm:20210913T173000 DTSTAMP:20260407T135401 CREATED:20210830T090518Z LAST-MODIFIED:20210907T143831Z UID:10000419-1631549700-1631554200@www.scilifelab.se SUMMARY:The Svedberg seminar series: Dr. Aviv Regev DESCRIPTION:Genentech\, USA \n\n\n\nHost: Erik Sonnhammer \, Stockholm University \n\n\n\nZOOM LINK \n\n\n\n\n\n\n\n\n\nAviv Regev is a leader in deciphering molecular circuits that govern cells\, tissues and organs in health and their malfunction in disease. Her lab has pioneered foundational experimental and computational methods in single-cell genomics\, working toward greater understanding of the function of cells and tissues in health and disease\, including autoimmune disease\, inflammation and cancer \n\n\n\nCell atlases as roadmaps in health and disease\n\n\n\nCells are the basic unit of life\, and form a key intermediate between genotype and phenotype\, that is essential to explain how the gene variants that contribute to disease risk act. The recent advent of methods for high-throughput single-cell and spatial profiling has opened the way to create a human cells atlas: comprehensive reference maps of all human cells as a basis for both understanding human health and diagnosing\, monitoring\, and treating disease. From such maps we recovered rich aspects of biology\, including cell types and states\, differentiation and other temporal processes\, gene programs\, the physical location and interactions between cells\, the underlying regulatory circuits\, and even the possibility of predicting cell types and behaviors\, towards a “periodic table of our cells”. These\, in turn give us a new vocabulary for disease studies to determine the way in which cells do disease genes act\, which cells are disrupted in disease\, which programs change in them\, what mechanisms underlie their (dis)regulation\, how their cell-cell communications affected\, and what would be the impact of therapies. In this talk\, I will focus on how atlases help us to understand the relation between genotype to phenotype\, especially in the context of human genetics and disease\, from cells\, to programs\, to deciphering individual gene functions\, using single cell genomics as a conceptual and technical framework\, in complex disease\, cancer\, and COVID-19.Read more about Prof. Regev´s research HERE URL:https://www.scilifelab.se/event/the-svedberg-seminar-series-prof-regev-aviv/ LOCATION:Online event via Zoom CATEGORIES:Event ORGANIZER;CN="The Svedberg Seminar Series":MAILTO:thesvedberg@scilifelab.uu.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210910T140000 DTEND;TZID=Europe/Stockholm:20210910T150000 DTSTAMP:20260407T135401 CREATED:20210827T111618Z LAST-MODIFIED:20210909T122507Z UID:10000418-1631282400-1631286000@www.scilifelab.se SUMMARY:BiG Talks - Network-based integration and visualization of large-scale data DESCRIPTION:BiG Talks: Integrative Omics\n\n\n\nArranged by the SciLifeLab platforms for Bioinformatics\, Genomics and Diagnostics Development \n\n\n\nThe Bioinformatics and Genomics seminar series (“BiG Talks”) is an initiative arranged by the SciLifeLab platforms for Bioinformatics (NBIS)\, Genomics (NGI) and Clinical Genomics platform. The seminar series aims to give inspiration to the SciLifeLab community and to create new networking possibilities. Each event will be broadcasted over Zoom where you will be able to interact with the speakers\, and live broadcasted at the SciLifeLab YouTube channel.  \n\n\n\nIn this seminar series\, run in parallel with the ELIXIR-SE / NBIS workshop in Omics Integration and Systems Biology\, we will be broadcasting three seminars about research and tools for integration of omics data through systems biology approaches\, in humans and model organisms. Please use the following link to register and access the Zoom link: \n\n\n\nRegistration\n\n\n\n\n\n\n\n\n\n8th of September\, 15:00 – 16:00 CET \n\n\n\nNetwork based analysis of 1002 GWAS study defines a pleiotropy map of human cell biologyDr. Pedro BeltraoGroup Leader\, EMBL-EBI\, United Kingdom \n\n\n\nMore info \n\n\n\n \n\n\n\n\n\n10th of September\, 13:00 – 13:55 CET \n\n\n\nMetabolic Atlas: genome-scale metabolic models for easy browsing and analysisMihail AntonProject Manager for Metabolic Atlas\, NBIS / Chalmers University\, Sweden \n\n\n\nMore info \n\n\n\n\n\n10th of September\, 14:00 – 15:00 CET \n\n\n\nNetwork-based integration and visualization of large-scale dataDr. Lars Juhl JensenGroup Leader\, Novo Nordisk Foundation Center for Protein Research\, Denmark \n\n\n\nMore info: See below \n\n\n\n\n\n\n\n\n\n\nNetwork-based integration and visualization of large-scale data\n\n\n\nDr. Lars Juhl Jensen\, Group Leader\, Novo Nordisk Foundation Center for Protein Research\, Denmark \n\n\n\nAbstract \n\n\n\nNetworks are a powerful abstraction for modeling and visualizing the interplay between the many proteins within a cell. In this lecture\, I will first introduce the STRING database\, which uses the network abstraction to integrate a wide range of evidence types for physical protein interactions and functional association. This includes predicted interactions\, interactions from other public databases\, and automatic text mining of the biomedical literature. I will show a common use case of STRING\, namely network-based visualization of omics data via the Cytoscape stringApp. \n\n\n\nBiography \n\n\n\nDr. Lars Juhl Jensen started his research career in Søren Brunak’s group at the Technical University of Denmark (DTU)\, from where he in 2002 received the Ph.D. degree in bioinformatics for his work on non-homology-based protein function prediction. During this time\, he also developed methods for visualization of microbial genomes\, pattern recognition in promoter regions\, and microarray analysis. From 2003 to 2008\, he was at the European Molecular Biology Laboratory (EMBL) where he worked on literature mining\, integration of large-scale experimental datasets\, and analysis of biological interaction networks. Since 2009\, he has continued this line of research as a professor at the Novo Nordisk Foundation Center for Protein Research at the Panum Institute in Copenhagen and as a founder\, owner and scientific advisor of Intomics A/S. He is a co-author of more than 200 scientific publications that have in total received more than 40\,000 citations. He was awarded the Lundbeck Foundation Talent Prize in 2003\, his work on cell-cycle research was named “Break-through of the Year” in 2006 by the magazine Ingeniøren\, his work on text mining won the first prize in the “Elsevier Grand Challenge: Knowledge Enhancement in the Life Sciences” in 2009\, and he was awarded the Lundbeck Foundation Prize for Young Scientists in 2010. Homepage: https://jensenlab.org/ \n\n\n\nHost: Rui Benfeitas\, NBIS Stockholm (rui.benfeitas@scilifelab.se) \n\n\n\nDate: September 10\, 14:00 – 15:00 CET online on Zoom \n\n\n\nBroadcast link (live event): SciLifeLab YouTube channel  \n\n\n\n \n\n\n\n \n\n\n\nRegistration form for zoom link URL:https://www.scilifelab.se/event/big-talks-3/ LOCATION:Online event via Zoom CATEGORIES:Event ORGANIZER;CN="BiG Talks":MAILTO:info@nbis.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210910T130000 DTEND;TZID=Europe/Stockholm:20210910T150000 DTSTAMP:20260407T135401 CREATED:20210910T060532Z LAST-MODIFIED:20210910T081453Z UID:10000444-1631278800-1631286000@www.scilifelab.se SUMMARY:BiG Talks - Integrative Omics DESCRIPTION:Arranged by the SciLifeLab platforms for Bioinformatics\, Genomics and Diagnostics Development.\n\n\n\nHost: Rui Benfeitas\, NBIS Stockholm (rui.benfeitas@scilifelab.se) \n\n\n\nThe Bioinformatics and Genomics seminar series (“BiG Talks”) is an initiative arranged by the SciLifeLab platforms for Bioinformatics (NBIS)\, Genomics (NGI) and Clinical Genomics platform. The seminar series aims to give inspiration to the SciLifeLab community and to create new networking possibilities. Each event will be broadcasted over Zoom where you will be able to interact with the speakers\, and live broadcasted at the SciLifeLab YouTube channel.  \n\n\n\nIn this seminar series\, run in parallel with the ELIXIR-SE / NBIS workshop in Omics Integration and Systems Biology\, we will be broadcasting three seminars about research and tools for integration of omics data through systems biology approaches\, in humans and model organisms. Please use the following link to register and access the Zoom link. \n\n\n\nRegistration\n\n\n\n\n\n\n\n\n\n8th of September\, 15:00 – 16:00 CET \n\n\n\nNetwork based analysis of 1002 GWAS study defines a pleiotropy map of human cell biologyDr. Pedro BeltraoGroup Leader\, EMBL-EBI\, United Kingdom \n\n\n\nMore info \n\n\n\n \n\n\n\n\n\n10th of September\, 13:00 – 13:55 CET \n\n\n\nThe Metabolic Atlas: genome-scale metabolic models for easy browsing and analysisMihail AntonProject Manager for Metabolic Atlas\, NBIS / Chalmers University\, Sweden \n\n\n\nMore info\, see below \n\n\n\n\n\n10th of September\, 14:00 – 15:00 CET \n\n\n\nNetwork-based integration and visualization of large-scale dataDr. Lars Juhl JensenGroup Leader\, Novo Nordisk Foundation Center for Protein Research\, Denmark \n\n\n\nMore info\, see below \n\n\n\n\n\n\nMetabolic Atlas: Genome-scale metabolic models for easy browsing and analysis\n\n\n\nMihail Anton\, Project Manager for Metabolic Atlas\, NBIS / Chalmers University of Technology\, Sweden \n\n\n\nAbstract \n\n\n\nAs science is advancing towards full reproducibility\, the ecosystem of tools and resources for genome-scale metabolic modelling is increasingly open-source. The talk will be centred on showcasing how Metabolic Atlas is aiding discovery of disease-related alterations of metabolism by contributing to this ecosystem. \n\n\n\nMetabolic Atlas integrates open-source GEMs of several model organisms\, and provides visualisations for these\, such as the Map Viewer via the manually curated 2D maps and the automatically generated 3D maps\, and the gene- and metabolite-centric Interaction Partners. In concert with other supporting features\, Metabolic Atlas is making open source genome-scale metabolic models easy to browse and analyse. \n\n\n\nThe talk will also promote a way to organise a model in a git repository\, the model test suite Memote\, and how this and other automations can be deployed on GitHub\, with the ultimate purpose of facilitating transparent community curation. \n\n\n\nBiography: In his role as project manager for Metabolic Atlas\, Mihail has been watching and contributing to the infrastructure supporting the development and community curation of genome scale metabolic models. Homepage: https://nbis.se/about/staff/mihail-anton/ \n\n\n\nDate: September 10\, 13:00 – 14:00 CET online on Zoom \n\n\n\nregistration for both talks\n\n\n\n\n\n\n\nNetwork-based integration and visualization of large-scale data\n\n\n\nDr. Lars Juhl Jensen\, Group Leader\, Novo Nordisk Foundation Center for Protein Research\, Denmark \n\n\n\nAbstract \n\n\n\nNetworks are a powerful abstraction for modeling and visualizing the interplay between the many proteins within a cell. In this lecture\, I will first introduce the STRING database\, which uses the network abstraction to integrate a wide range of evidence types for physical protein interactions and functional association. This includes predicted interactions\, interactions from other public databases\, and automatic text mining of the biomedical literature. I will show a common use case of STRING\, namely network-based visualization of omics data via the Cytoscape stringApp. \n\n\n\nBiography \n\n\n\nDr. Lars Juhl Jensen started his research career in Søren Brunak’s group at the Technical University of Denmark (DTU)\, from where he in 2002 received the Ph.D. degree in bioinformatics for his work on non-homology-based protein function prediction. During this time\, he also developed methods for visualization of microbial genomes\, pattern recognition in promoter regions\, and microarray analysis. From 2003 to 2008\, he was at the European Molecular Biology Laboratory (EMBL) where he worked on literature mining\, integration of large-scale experimental datasets\, and analysis of biological interaction networks. Since 2009\, he has continued this line of research as a professor at the Novo Nordisk Foundation Center for Protein Research at the Panum Institute in Copenhagen and as a founder\, owner and scientific advisor of Intomics A/S. He is a co-author of more than 200 scientific publications that have in total received more than 40\,000 citations. He was awarded the Lundbeck Foundation Talent Prize in 2003\, his work on cell-cycle research was named “Break-through of the Year” in 2006 by the magazine Ingeniøren\, his work on text mining won the first prize in the “Elsevier Grand Challenge: Knowledge Enhancement in the Life Sciences” in 2009\, and he was awarded the Lundbeck Foundation Prize for Young Scientists in 2010. Homepage: https://jensenlab.org/ \n\n\n\nDate: September 10\, 14:00 – 15:00 CET online on Zoom \n\n\n\nregistration for both talks URL:https://www.scilifelab.se/event/big-talks/ LOCATION:Online event via Zoom CATEGORIES:Event ORGANIZER;CN="BiG Talks":MAILTO:info@nbis.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210910T130000 DTEND;TZID=Europe/Stockholm:20210910T135500 DTSTAMP:20260407T135401 CREATED:20210827T111000Z LAST-MODIFIED:20210909T122434Z UID:10000417-1631278800-1631282100@www.scilifelab.se SUMMARY:BiG Talks - Metabolic Atlas: genome-scale metabolic models for easy browsing and analysis DESCRIPTION:BiG Talks: Integrative Omics\n\n\n\nArranged by the SciLifeLab platforms for Bioinformatics\, Genomics and Diagnostics Development \n\n\n\nThe Bioinformatics and Genomics seminar series (“BiG Talks”) is an initiative arranged by the SciLifeLab platforms for Bioinformatics (NBIS)\, Genomics (NGI) and Clinical Genomics platform. The seminar series aims to give inspiration to the SciLifeLab community and to create new networking possibilities. Each event will be broadcasted over Zoom where you will be able to interact with the speakers\, and live broadcasted at the SciLifeLab YouTube channel.  \n\n\n\nIn this seminar series\, run in parallel with the ELIXIR-SE / NBIS workshop in Omics Integration and Systems Biology\, we will be broadcasting three seminars about research and tools for integration of omics data through systems biology approaches\, in humans and model organisms. Please use the following link to register and access the Zoom link: \n\n\n\nRegistration\n\n\n\n\n\n\n\n\n\n8th of September\, 15:00 – 16:00 CET \n\n\n\nNetwork based analysis of 1002 GWAS study defines a pleiotropy map of human cell biologyDr. Pedro BeltraoGroup Leader\, EMBL-EBI\, United Kingdom \n\n\n\nMore info \n\n\n\n \n\n\n\n\n\n10th of September\, 13:00 – 13:55 CET \n\n\n\nThe Metabolic Atlas: genome-scale metabolic models for easy browsing and analysisMihail AntonProject Manager for Metabolic Atlas\, NBIS / Chalmers University\, Sweden \n\n\n\nMore info\, see below \n\n\n\n\n\n10th of September\, 14:00 – 15:00 CET \n\n\n\nNetwork-based integration and visualization of large-scale dataDr. Lars Juhl JensenGroup Leader\, Novo Nordisk Foundation Center for Protein Research\, Denmark \n\n\n\nMore info \n\n\n\n\n\n\n\n\n\n\nMetabolic Atlas: Genome-scale metabolic models for easy browsing and analysis\n\n\n\nMihail Anton\, Project Manager for Metabolic Atlas\, NBIS / Chalmers University of Technology\, Sweden \n\n\n\nAbstract \n\n\n\nAs science is advancing towards full reproducibility\, the ecosystem of tools and resources for genome-scale metabolic modelling is increasingly open-source. The talk will be centred on showcasing how Metabolic Atlas is aiding discovery of disease-related alterations of metabolism by contributing to this ecosystem. \n\n\n\nMetabolic Atlas integrates open-source GEMs of several model organisms\, and provides visualisations for these\, such as the Map Viewer via the manually curated 2D maps and the automatically generated 3D maps\, and the gene- and metabolite-centric Interaction Partners. In concert with other supporting features\, Metabolic Atlas is making open source genome-scale metabolic models easy to browse and analyse. \n\n\n\nThe talk will also promote a way to organise a model in a git repository\, the model test suite Memote\, and how this and other automations can be deployed on GitHub\, with the ultimate purpose of facilitating transparent community curation. \n\n\n\nBiography: In his role as project manager for Metabolic Atlas\, Mihail has been watching and contributing to the infrastructure supporting the development and community curation of genome scale metabolic models. Homepage: https://nbis.se/about/staff/mihail-anton/ \n\n\n\nHost: Rui Benfeitas\, NBIS Stockholm (rui.benfeitas@scilifelab.se) \n\n\n\nDate: September 10\, 13:00 – 13:55 CET online on Zoom \n\n\n\nBroadcast link (live event): SciLifeLab YouTube channel \n\n\n\n \n\n\n\nRegistration form for zoom link URL:https://www.scilifelab.se/event/big-talks-2/ LOCATION:Online event via Zoom CATEGORIES:Event ORGANIZER;CN="BiG Talks":MAILTO:info@nbis.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210909T130000 DTEND;TZID=Europe/Stockholm:20210909T140000 DTSTAMP:20260407T135401 CREATED:20210824T114020Z LAST-MODIFIED:20210824T114023Z UID:10000411-1631192400-1631196000@www.scilifelab.se SUMMARY:Campus Solna Seminar Series: Jaromir Mikes and Niklas Sandström DESCRIPTION:Welcome to join the Campus Solna Seminar Series – an initiative to promote the fantastic science ongoing at Campus Solna and hopefully forge more internal communication and collaboration between within Campus Solna. The format consists of two 15 min talks (One speaker from the Alpha-building and one from the Gamma-building respectively)\, with an additional 5 min of questions. Presentation of ongoing (unpublished) projects is strongly encouraged. \n\n\n\nThe seminars are held Thursdays 13:00-13:50 and following current regulations\, they will be broadcast via zoom. \n\n\n\n \n\n\n\nThis week\n\n\n\nMinimizing technical variance by improved whole blood sampling protocol leads to better data and more interesting scienceJaromir Mikes (Petter Brodin\, alpha 1)  \n\n\n\n \n\n\n\nLab-on-chip for drug toxicology and cell cytotoxicity assaysNiklas Sandström (Björn Önfelt\, gamma 3) \n\n\n\nRegistration\n\n\n\nRegister to receive the zoom-link. The same zoom link applies for all Campus Solna Seminar Series\, i.e. only one registration is necessary. URL:https://www.scilifelab.se/event/campus-solna-seminar-series-jaromir-mikes-and-niklas-sandstrom/ CATEGORIES:Community ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210909T090000 DTEND;TZID=Europe/Stockholm:20210909T093000 DTSTAMP:20260407T135401 CREATED:20210903T140828Z LAST-MODIFIED:20210906T140903Z UID:10000438-1631178000-1631179800@www.scilifelab.se SUMMARY:Clinical Talks: From BMC to Wall Street DESCRIPTION:After our recent planning hiatus\, we now have the great pleasure to announce that “Clinical Talks” has been renewed for yet another exciting\, innovative\, and enlightening season. This season will focus on sustainable innovations within Life Sciences\, that have the potential to contribute to a better climate friendly future for our future generations. Also new this year is that the seminar is co-organized in a collaboration between SciLifeLab and KI Innovations. \n\n\n\nSeason 5\, will be held September until December 2021 with a total of seven scheduled Talks\, during Friday mornings 09-09:30 am via ZOOM (with some time-zone friendly adjustments for our international speakers). Each session consists of a talk given by our invited speaker followed by Q&A. The seminar is an open educational seminar series for our ever-expanding Life Science community. \n\n\n\nRead more about the clinical talk series here\n\n\n\n\n\n\n\n\n \n\n\n\n\n\nDr. Andrea Ballagi\, Olink Proteomics VP Sales and Marketing \n\n\n\nAndrea Ballagi has an MD from Semmelweis School of Medicine in Budapest\, a PhD in Cancer research from Ludwig Institute for Cancer Research in Uppsala and a MBA from Uppsala University. She started her industry career at IDEXX Laboratories located in Switzerland as a general manager and later moved back to Uppsala as a global technical service and product line manager in 2011. Andrea joined Olink in 2012 as director of commercial operations and has since been a major part of the company’s expansive growth phases. She currently serves as VP Sales and Marketing EMEA. \n\n\n\nAndrea has with her roots as an MD a real passion to change the way diagnostics is being conducted to in today’s clinical reality. By bringing in groundbreaking technological possibilities and unprecedented future treatment options made possible by the extensive Olink technological platform. \n\n\n\n\n\n\n\n\n\n\n\n\n\nDr. Simon Fredriksson\, Co-Founder Olink \n\n\n\nSimon Fredriksson has a PhD in Molecular Medicine from Uppsala University and conducted postdoctoral studies in biochemistry at Stanford University\, and most recently appointed Adjunct Professor at KTH. He is also the co-founder of Olink\, and both former CSO\, and CEO of the company in its formation and growth phases. His academic research resulted in multiple high impact publications and inventions that were commercialized into products. Most notably the Proximity-Ligation and -Extension assays for multiplex protein detection\, the main products of Olink Proteomics. \n\n\n\nIn 2015\, Simon co-founded and was the former CEO of Genagon Therapeutics\, a ground-breaking immuno-oncology company. Presently co-founder and CEO of Pixelgen Technologies\, and Partner in Colibri Ventures\, a premier life science business incubator\, that helps start-ups develop early ideas into successful companies faster and more efficient. Simon also has extensive board member experience from 9 years at Olink AB (partly exited to Nexttobe 2011)\, Biolamina AB (+6 years)\, Olink Proteomics AB (exited to Summa Equity 2019)\, and Cartana AB (exited to 10X Genomics 2020) and Genagon Therapeutics. \n\n\n\nAs an experienced life science entrepreneur\, researcher and inventor spanning from research tools to bio-therapeutics\, Simon has always been fascinated by technology innovation capable of pushing the frontiers of scientific discovery into new and unchartered territories. \n\n\n\n\n\n\n\n\n\n\n\n \n\n\n\nRegister to receive zoom link URL:https://www.scilifelab.se/event/clinical-talks-from-bmc-to-wall-street/ CATEGORIES:Event ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2021/09/ClinicalTalks_Season5_twitter_1024.jpg ORGANIZER;CN="Clinical Talks":MAILTO:precisionmedicine@scilifelab.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210909T090000 DTEND;TZID=Europe/Stockholm:20210909T093000 DTSTAMP:20260407T135401 CREATED:20210830T154920Z LAST-MODIFIED:20210903T142012Z UID:10000421-1631178000-1631179800@www.scilifelab.se SUMMARY:Clinical Talks: From BMC to Wall Street DESCRIPTION:After our recent planning hiatus\, we now have the great pleasure to announce that “Clinical Talks” has been renewed for yet another exciting\, innovative\, and enlightening season. This season will focus on sustainable innovations within Life Sciences\, that have the potential to contribute to a better climate friendly future for our future generations. Also new this year is that the seminar is co-organized in a collaboration between SciLifeLab and KI Innovations. \n\n\n\nSeason 5\, will be held September until December 2021 with a total of seven scheduled Talks\, during Friday mornings 09-09:30 am via ZOOM (with some time-zone friendly adjustments for our international speakers). Each session consists of a talk given by our invited speaker followed by Q&A. The seminar is an open educational seminar series for our ever-expanding Life Science community. \n\n\n\nRead more about the clinical talk series here\n\n\n\n\n\n\n\n\n \n\n\n\n\n\nDr. Andrea Ballagi\, Olink Proteomics VP Sales and Marketing \n\n\n\nAndrea Ballagi has an MD from Semmelweis School of Medicine in Budapest\, a PhD in Cancer research from Ludwig Institute for Cancer Research in Uppsala and a MBA from Uppsala University. She started her industry career at IDEXX Laboratories located in Switzerland as a general manager and later moved back to Uppsala as a global technical service and product line manager in 2011. Andrea joined Olink in 2012 as director of commercial operations and has since been a major part of the company’s expansive growth phases. She currently serves as VP Sales and Marketing EMEA. \n\n\n\nAndrea has with her roots as an MD a real passion to change the way diagnostics is being conducted to in today’s clinical reality. By bringing in groundbreaking technological possibilities and unprecedented future treatment options made possible by the extensive Olink technological platform. \n\n\n\n\n\n\n\n\n\n\n\n\n\nDr. Simon Fredriksson\, Co-Founder Olink \n\n\n\nSimon Fredriksson has a PhD in Molecular Medicine from Uppsala University and conducted postdoctoral studies in biochemistry at Stanford University\, and most recently appointed Adjunct Professor at KTH. He is also the co-founder of Olink\, and both former CSO\, and CEO of the company in its formation and growth phases. His academic research resulted in multiple high impact publications and inventions that were commercialized into products. Most notably the Proximity-Ligation and -Extension assays for multiplex protein detection\, the main products of Olink Proteomics. \n\n\n\nIn 2015\, Simon co-founded and was the former CEO of Genagon Therapeutics\, a ground-breaking immuno-oncology company. Presently co-founder and CEO of Pixelgen Technologies\, and Partner in Colibri Ventures\, a premier life science business incubator\, that helps start-ups develop early ideas into successful companies faster and more efficient. Simon also has extensive board member experience from 9 years at Olink AB (partly exited to Nexttobe 2011)\, Biolamina AB (+6 years)\, Olink Proteomics AB (exited to Summa Equity 2019)\, and Cartana AB (exited to 10X Genomics 2020) and Genagon Therapeutics. \n\n\n\nAs an experienced life science entrepreneur\, researcher and inventor spanning from research tools to bio-therapeutics\, Simon has always been fascinated by technology innovation capable of pushing the frontiers of scientific discovery into new and unchartered territories. \n\n\n\n\n\n\n\n\n\n\n\n \n\n\n\nRegister to receive zoom link URL:https://www.scilifelab.se/event/from-bmc-to-wall-street-old/ CATEGORIES:Event ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2021/08/Clinical-Talks.png ORGANIZER;CN="Clinical Talks":MAILTO:precisionmedicine@scilifelab.se LOCATION:https://www.scilifelab.se/event/from-bmc-to-wall-street-old/ END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210908T150000 DTEND;TZID=Europe/Stockholm:20210908T160000 DTSTAMP:20260407T135401 CREATED:20210827T090406Z LAST-MODIFIED:20210902T144342Z UID:10000416-1631113200-1631116800@www.scilifelab.se SUMMARY:BiG Talks - Network based analysis of 1002 GWAS study defines a pleiotropy map of human cell biology DESCRIPTION:BiG Talks: Integrative Omics\n\n\n\nArranged by the SciLifeLab platforms for Bioinformatics\, Genomics and Diagnostics Development \n\n\n\nThe Bioinformatics and Genomics seminar series (“BiG Talks”) is an initiative arranged by the SciLifeLab platforms for Bioinformatics (NBIS)\, Genomics (NGI) and Clinical Genomics platform. The seminar series aims to give inspiration to the SciLifeLab community and to create new networking possibilities. Each event will be broadcasted over Zoom where you will be able to interact with the speakers\, and live broadcasted at the SciLifeLab YouTube channel.  \n\n\n\nIn this seminar series\, run in parallel with the ELIXIR-SE / NBIS workshop in Omics Integration and Systems Biology\, we will be broadcasting three seminars about research and tools for integration of omics data through systems biology approaches\, in humans and model organisms. Please use the following link to register and access the Zoom link: \n\n\n\nRegistration\n\n\n\n\n\n\n\n\n\n8th of September\, 15:00 – 16:00 CET \n\n\n\nNetwork based analysis of 1002 GWAS study defines a pleiotropy map of human cell biologyDr. Pedro BeltraoGroup Leader\, EMBL-EBI\, United Kingdom \n\n\n\nMore info\, see below \n\n\n\n \n\n\n\n\n\n10th of September\, 13:00 – 13:55 CET \n\n\n\nMetabolic Atlas: genome-scale metabolic models for easy browsing and analysisMihail AntonProject Manager for Metabolic Atlas\, NBIS / Chalmers University\, Sweden \n\n\n\nMore info \n\n\n\n\n\n10th of September\, 14:00 – 15:00 CET \n\n\n\nNetwork-based integration and visualization of large-scale dataDr. Lars Juhl JensenGroup Leader\, Novo Nordisk Foundation Center for Protein Research\, Denmark \n\n\n\nMore info \n\n\n\n\n\n\n\n\n\n\nNetwork based analysis of 1002 GWAS study defines a pleiotropy map of human cell biology\n\n\n\nDr. Pedro Beltrao\, Group Leader\, EMBL – EBI\, United Kingdom \n\n\n\nAbstract \n\n\n\nUnderstanding how genetic variation contributes to phenotypic differences is a central question in biology. This requires models that can describe how rare and common genetic variability impacts on different cellular components and traits. To study the impact of rare variants we develop and combine variant effect predictors for protein stability\, interaction affinity\, and gene expression regulation. We have applied these to study the impact of rare variants on trait variation in strains of micro-organisms\, including panels of 1000 strains of E. coli and S. cerevisiae.  For human we have used a network-based approach to study 1002 traits analysed by genome wide association studies (GWAS). Based on the principle that genes associated with the same phenotype tend to be involved in the same cellular processes\, we performed a network expansion and prioritization of trait associated genes. The network based gene-trait association scores allows for the identification of related traits and the biological processes that they share. Based on this we can identify pleiotropic biological processes that can influence a large number of human traits and identify opportunities for drug repurposing. Finally\, I will illustrate how this analysis can be combined with patient specific mRNA/protein data for further prioritization. I will focus on neurodegeneration diseases to illustrate the identification of shared aetiology and further integrate ALS SOD1 mutant patient mRNA/protein data to identify novel astrocyte candidate ALS linked genes. As a future perspective I will briefly discuss the need for approaches that can jointly integrate common and rare genetic variation to improve our understanding of trait variation. \n\n\n\nBiography \n\n\n\nDr. Pedro Beltrao is a group leader at EMBL – EBI where his research group seeks to understand how cellular functions have diverged during evolution as well as how they are altered in disease. He employs systems biology techniques to analyse GWAS\, post-translational modifications (PTMs) data from mass-spectrometry experiments\, among other omics\, to study the molecular sources of phenotypic novelties\, exploring how DNA changes are propagated through molecular structures and interaction networks to give rise to phenotypic variability. Dr. Beltrao has a PhD in Biology from the University of Aveiro (research conducted at EMBL-Heidelberg)\, after which he conducted his postdoctoral research at the University of California San Francisco. Dr. Beltrao is a group leader at EMBL-EBI since 2013\, and will join ETH Zurich in 2022.  Homepage: https://www.ebi.ac.uk/research-beta/beltrao/ \n\n\n\nHost: Rui Benfeitas\, NBIS Stockholm (rui.benfeitas@scilifelab.se) \n\n\n\nDate: September 8\, 15:00 – 16:00 CET online on Zoom \n\n\n\nBroadcast link (live event): SciLifeLab YouTube channel  \n\n\n\nRegistration form for zoom link URL:https://www.scilifelab.se/event/big-talks-1/ LOCATION:Online event via Zoom CATEGORIES:Event ORGANIZER;CN="BiG Talks":MAILTO:info@nbis.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210908T080000 DTEND;TZID=Europe/Stockholm:20210910T170000 DTSTAMP:20260407T135401 CREATED:20210527T110708Z LAST-MODIFIED:20210906T135301Z UID:10000393-1631088000-1631293200@www.scilifelab.se SUMMARY:Workshop on Plotting in R - ONLINE 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.The course is organized by NBIS (ELIXIR-SE). \n\n\n\nResponsible teachers: Lokeshwaran Manoharan\, Louella Vasquez\, Markus RingnerContact information: edu.plotting.r@nbis.se \n\n\n\n\n\n\n\n\nApplication\n\n\n\nCourse website\n\n\n\n\n\n\n\n\nImportant dates\n\n\n\nApplication open: June 01Application deadline: July 30Confirmation to accepted participants: August 06 \n\n\n\nCourse 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 1700 SEK.*Please note that NBIS cannot invoice individuals \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\nCourse content\n\n\n\nIn this course you will learn how to visualize your data in R.In particular\, you will learn: \n\n\n\n·          how to format the data necessary for ggplot·          how to make bar-charts\, box-plots and others using ggplot·          how to make PCA plots in ggplot·          how to use R packages for heatmaps·          how to plot data on maps using R (optional)·          how to plot and handle phylogenetic trees in R (optional)·          how to make interactive plots in R using Rshiny·          how to host a Rshiny app in one of the available servers \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·          apply the grammar efficiently in ggplot to get the desired plot·          combine different data and/or different plots that are of publication-grade·          write your own simple Rshiny app·          deploy Rshiny apps in public servers.  \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 a webcam running R and Rstudio You will be asked to install the video conferencing software zoom (https://zoom.us/) to be able to participate in the courseyou will be asked to install different R packages necessary for the course prior to the course. \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-plotting-in-r-online/ CATEGORIES:Course ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se LOCATION: END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210907T090000 DTEND;TZID=Europe/Stockholm:20210907T110000 DTSTAMP:20260407T135401 CREATED:20210902T060222Z LAST-MODIFIED:20210902T060229Z UID:10000423-1631005200-1631012400@www.scilifelab.se SUMMARY:BioImage Informatics Call4Help DESCRIPTION:Every 1st week of the month (mainly on Tuesdays\, but there might be exceptions) the BioImage Informatics Facility together with microscopy expert Sylvie Le Guyader (LCI\, Karolinska Institutet) organizes a Call4Help session. The aim is to offer combined expertise towards microscopy and bioimage analysis. All researchers from Swedish institutes can participate. \n\n\n\nThe ideal timepoint to join the Call4Help session is when a researcher has performed pilot experiments and has tried out first analysis approaches – but before having recorded hundreds of images. Combining BIIF’s expertise in BioImage Analysis with microscopy expertise we can discuss ways to record the images that allow analysis afterwards. We will discuss different analysis approaches using mainly open-source software (Fiji\, CellProfiler\, QuPath\, Ilastik\, KNIME)\, but also commercial systems\, if needed (Imaris). \n\n\n\nThe Call4Help session format has been introduced to the BioImage Analysis community by NEUBIAS and ScopeM. \n\n\n\nHow to participate? \n\n\n\nStep1: \n\n\n\nPrepare a short presentation (5-7 min)  – use the following template for your presentation: \n\n\n\nhttp://bit.ly/BIIF_C4H_slideTemplate \n\n\n\nSlide template by NEUBIAS/ScopeM \n\n\n\nStep2: \n\n\n\na) Upload your presentation \n\n\n\nUpload your presentation to a drive of your choice. You can also use our Call4Help google drive. Note that files shared on our Call4Help drive will be available to everyone until the session is over. \n\n\n\nhttp://bit.ly/BIIF_C4H_Drive \n\n\n\nb) Upload example images for testing. \n\n\n\nUpload example images for testing either to the drive of your choice or our Call4Help google drive above. \n\n\n\nhttp://bit.ly/BIIF_C4H_Drive \n\n\n\nc) Register by filling out the registration form: \n\n\n\nhttp://bit.ly/BIIF_C4H_Registration \n\n\n\nStep 3: \n\n\n\nJoin the zoom-session. \n\n\n\nIf your problem is selected for presentation\, you will get a time-slot of 30 – 60 minutes within the session. \n\n\n\nWhat are the Deadlines \n\n\n\nSubmission of a problem and upload of example data: Friday the week before the session. \n\n\n\nNotification about participation: The day before the session. \n\n\n\nNext Call4Help session \n\n\n\nTuesday\, September 7\, 2021\, 9.00-11.00. \n\n\n\nDeadline for application: Friday\, September 3\, 2021. URL:https://www.scilifelab.se/event/bioimage-informatics-call4help-3/ CATEGORIES:Event ORGANIZER;CN="Bioimage Informatics Unit":MAILTO:biif@scilifelab.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210906T080000 DTEND;TZID=Europe/Stockholm:20210910T170000 DTSTAMP:20260407T135401 CREATED:20210603T124622Z LAST-MODIFIED:20210615T135807Z UID:10000396-1630915200-1631293200@www.scilifelab.se SUMMARY:ELIXIR Omics Integration and Systems Biology - Online DESCRIPTION:The National Bioinformatics Infrastructure Sweden (NBIS) / ELIXIR Sweden is pleased to announce the workshop in Omics Integration and Systems Biology. This workshop is open for PhD students\, postdocs\, group leaders and core unit staff from European institutions looking for an introduction to multi-omics integration and systems biology approaches. \n\n\n\nThis workshop will include lectures and hands-on exercises from NBIS / Scilifelab experts from Stockholm\, Lund and Gothenburg\, as well as guest sessions from: \n\n\n\nRicard Argelaguet\, PhD\, Babraham Institute\, United KingdomKim-Anh Lê Cao\, PhD\, Melbourne University\, AustraliaPedro Beltrao\, PhD\, EMBL-EBI\, United KingdomNikolaus Sonnenschein\, PhD\, DTU Technical University of Denmark\, Denmark\n\n\n\n More information to come on the course website. \n\n\n\nImportant Dates \n\n\n\n\nApplication opens: 3 JuneApplication closes: 9 AugustConfirmation to accepted students: 16 August\n\n\n\n\n\n\n\n\n\nApplication\n\n\n\n\n\nCourse website\n\n\n\n\n\n\n\n\nFee \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 2000 SEK. \n\n\n\n* Please note that NBIS cannot invoice individuals. \n\n\n\nContent \n\n\n\nThe aim of this workshop is to provide an integrated view of data-driven hypothesis generation through biological network analysis\, constraint-based modelling\, and supervised and unsupervised integration methods. A general description of different methods for analysing different omics data (e.g. transcriptomics and genomics) will be presented with some of the lectures discussing key methods and pitfalls in their integration. The techniques will be discussed in terms of their rationale and applicability. The course will also include hands-on sessions and several seminars by invited speakers. \n\n\n\nSome of the covered topics include: \n\n\n\nData pre-processing and cleaning prior to integration\n\n\n\nApplication of key machine learning methods for multi-omics analysis including deep learning\n\n\n\nMulti-omics integration\, clustering and dimensionality reduction\n\n\n\nBiological network inference\, community and topology analysis and visualization\n\n\n\nCondition-specific and personalized modeling through Genome-scale Metabolic models for integration of transcriptomic\, proteomic\, metabolomic and fluxomig data\n\n\n\nIdentification of key biological functions and pathways\n\n\n\nIdentification of potential biomarkers and targetable genes through modeling and biological network analysis\n\n\n\nApplication of network approaches in meta-analyses\n\n\n\nSimilarity network fusion and matrix factorization techniques\n\n\n\nIntegrated data visualization techniques\n\n\n\nFurther details about the course content may be found on the course website. \n\n\n\nEntry requirements \n\n\n\nThis is a course is open for PhD students\, postdocs\, group leaders and core unit staff from European institutions. Please note that NBIS training events do not provide any formal university credits. 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 can be performed using R or Python\, so we only accept students with previous experience in one of those programming languages. We will not discuss how to process specific omics\, and the students are referred to other NBIS courses for this matter. \n\n\n\nRequired: \n\n\n\nBasic knowledge in R or Python;Basic understanding of frequentist statistics;A computer with web camera\, Zoom\, and permissions for installing software.\n\n\n\nDesirable: \n\n\n\nExperience with analysis of NGS and other omic data;Completing NBIS courses “Introduction to Bioinformatics using NGS data” and “Introduction to biostatistics and machine learning”Basic conda and git knowledge\n\n\n\nThis workshop can accommodate a maximum of 25 participants. If we receive more applications\, participants will be selected based on several criteria including entry requirements\, motivation to attend the course as well as gender and geographical balance. \n\n\n\nContact information \n\n\n\nFor questions about this workshop please contact: edu.omics-integration@nbis.se URL:https://www.scilifelab.se/event/elixir-omics-integration-and-systems-biology-online/ CATEGORIES:Course ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210903T090000 DTEND;TZID=Europe/Stockholm:20210903T093000 DTSTAMP:20260407T135401 CREATED:20210820T082759Z LAST-MODIFIED:20220914T085524Z UID:10000409-1630659600-1630661400@www.scilifelab.se SUMMARY:Clinical Talks: Combining the power of nature with the efficiency of the chemical industry DESCRIPTION:After our recent planning hiatus\, we now have the great pleasure to announce that “Clinical Talks” has been renewed for yet another exciting\, innovative\, and enlightening season. This season will focus on sustainable innovations within Life Sciences\, that have the potential to contribute to a better climate friendly future for our future generations. Also new this year is that the seminar is co-organized in a collaboration between SciLifeLab and KI Innovations. \n\n\n\nSeason 5\, will be held September until December 2021 with a total of seven scheduled Talks\, during Friday mornings 09-09:30 am via ZOOM (with some time-zone friendly adjustments for our international speakers). Each session consists of a talk given by our invited speaker followed by Q&A. The seminar is an open educational seminar series for our ever-expanding Life Science community. \n\n\n\nRead more about the clinical talk series here\n\n\n\n\n\n\n\n \n\n\n\n\n\nCombining the power of nature with the efficiency of the chemical industry\n\n\n\nKarim E. Cassimjee\, CEO & co-Founder EnginZyme \n\n\n\nRegister to receive zoom link\n\n\n\n\n\n\n\n\n\n\n\nKarim has a PhD in biotechnology from Royal Institute of Technology (KTH) and conducted postdoctoral studies in organic chemistry and quantum mechanics at Arrhenius laboratory (Stockholm University). He early found a passion for enzymes and their potential for solving the commonly unsustainable production of the chemical products used in our everyday lives and that modern society relies upon. He co-founded EnginZyme in 2014 – a company dedicated to replacing the incumbent chemical transformations that rely on heavy metal catalysts and high energy consumption\, and produce a lot of bi-products. This is accomplished by developing production processes based on a proprietary and general enzyme immobilization technology applied in flow chemistry set-ups. In 2021 Karim was selected as the KTH Alumnus of the Year\, and EnginZyme as Technology Pioneer by the World Economic Forum. \n\n\n\nDuring the first Clinical Talks of the season\, Karim will share his passion and insights for his work\, technology aspirations\, and experiences in pharmaceutical production\, and how EnginZyme will “make the impossible possible” for a sustainable industrial large-scale production for future generations.” URL:https://www.scilifelab.se/event/clinical-talks-combining-the-power-of-nature-with-the-efficiency-of-the-chemical-industry/ CATEGORIES:Event ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2021/08/Clinical-Talks.png ORGANIZER;CN="Clinical Talks":MAILTO:precisionmedicine@scilifelab.se LOCATION:https://www.scilifelab.se/event/clinical-talks-combining-the-power-of-nature-with-the-efficiency-of-the-chemical-industry/ END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210902T130000 DTEND;TZID=Europe/Stockholm:20210902T140000 DTSTAMP:20260407T135401 CREATED:20210824T112822Z LAST-MODIFIED:20210825T082041Z UID:10000410-1630587600-1630591200@www.scilifelab.se SUMMARY:Campus Solna Seminar Series: Banushree Kumar and Vivek Singh DESCRIPTION:Welcome to join the Campus Solna Seminar Series – an initiative to promote the fantastic science ongoing at Campus Solna and hopefully forge more internal communication and collaboration between within Campus Solna. The format consists of two 15 min talks (One speaker from the Alpha-building and one from the Gamma-building respectively)\, with an additional 5 min of questions. Presentation of ongoing (unpublished) projects is strongly encouraged. \n\n\n\nThe seminars are held Thursdays 13:00-13:50 and following current regulations\, they will be broadcast via zoom. \n\n\n\n \n\n\n\nThis week\n\n\n\nPolycomb Repressive Complex 2 shields naive human pluripotent cells from trophectoderm differentiation. Banushree Kumar (Simon Elsässer\, alpha 4)  \n\n\n\n \n\n\n\nTowards high-resolution structures of the human mitoribosomeVivek Singh (Alexey Amunts\, gamma 6) \n\n\n\nRegistration\n\n\n\nRegister to receive the zoom-link. The same zoom link applies for all Campus Solna Seminar Series\, i.e. only one registration is necessary. URL:https://www.scilifelab.se/event/a-campus-solna-seminar-series-banushree-kumar-and-vivek-singh/ CATEGORIES:Community ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210830T080000 DTEND;TZID=Europe/Stockholm:20210903T170000 DTSTAMP:20260407T135401 CREATED:20210607T141128Z LAST-MODIFIED:20210608T125759Z UID:10000398-1630310400-1630688400@www.scilifelab.se SUMMARY:Summer School Advanced topics in single cell Transcriptomics - Online DESCRIPTION:Overview\n\n\n\nNBIS (SciLifeLab Bioinformatics Platform) and SIB (Swiss Institute of Bioinformatics) are pleased to co-organize this online course in Advanced topics in single cell Transcriptomics. \n\n\n\nThis jointly collaborative effort between the SIB and NBIS (SciLifeLab Bioinformatics Platform) was launched in 2019 as an every-second-year seasonal school where the thematic topic mirrors the life science demand of knowledge up-skilling. In 2019 we did a seasonal school on the topic of single-cell omics analysis and this year we are repeating this theme as the demand is still extremely high. \n\n\n\nIn recent years\, single-cell transcriptomics has become a widely used technology to study heterogeneous and dynamic biological systems. A large number of new tools and approaches have been developed for analyzing this new type of data. The goal of this joint School is to provide PhD students and postdocs with theoretical and mostly hands-on knowledge on selected advanced topics in Single Cell analysis. In particular\, the participants will be split into small groups to develop mini projects (more details provided later to accepted students. \n\n\n\nFor this one week course in single-cell transcriptomic we are delighted to have several excellent researchers and experts from both the Swedish and the Swiss Life Science community such as teachers such as Alma Andersson\, Åsa Björklund\, Volker Bergen\, Paulo Czarnewski\, Emma Dann\, Charlotte Soneson\, Panagiotis Papasaikas\, Geert van Geest and others. \n\n\n\nTarget audience\n\n\n\nThis course is designed for intermediate users and we consider the knowledge of basic steps in single-cell analysis as a prerequisite. \n\n\n\nCourse and Application details\n\n\n\nApplication is now open at SIB announcement Summer School Advanced topics in single cell Transcriptomics. The SIB page will be regularly updated with more detailed information. \n\n\n\nAny questions please contact Jessica Lindvall (Training coordination\, NBIS)\, jessica.lindvall@nbis.se and Grégoire Rossier (Training coordination\, SIB)\, Gregoire.Rossier@sib.swiss        \n\n\n\nImportant dates\n\n\n\nDeadline for free-of-charge cancellation is set to 28/07/2021. Cancellation after this date will not be reimbursed. \n\n\n\nCourse fee\n\n\n\nThe registration fees for academics are 300 CHF (appriximately 270 Euro) and 1500 CHF (approximately 1370 Euro) for for-profit companies. URL:https://www.scilifelab.se/event/summer-school-advanced-topics-in-single-cell-transcriptomics-online/ CATEGORIES:Course ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210823T151500 DTEND;TZID=Europe/Stockholm:20210823T163000 DTSTAMP:20260407T135402 CREATED:20210816T071003Z LAST-MODIFIED:20210816T093408Z UID:10000406-1629731700-1629736200@www.scilifelab.se SUMMARY:SciLifeLab The Svedberg seminar: Prof. Athula Attygalle DESCRIPTION: Stevens Institute of Technology\, USA \n\n\n\n\n\n\n\n\n\nLINK TO SEMINAR \n\n\n\n Prof. Athula Attygalle obtained a PhD in Chemistry from Keele University in 1983. After his doctorate\, Attygalle was awarded a Fellowship by the Humboldt Foundation to conduct research at Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU) under late Prof\, Hans Jürgen Bestmann\, a pioneer in the field of insect pheromone synthesis. Four years at FAU\, provided the impetus for Attygalle to become an expert in high-resolution mass spectrometry and micro-chemical techniques for structure elucidation of natural compounds at nanogram level. At FAU\, Attygalle championed in the area of lepidopteran sex pheromone identification. Attygalle was a visiting professor at University of Houston\, Texas and he has served as the Director of Mass Spectrometry facility at Cornell University. He has completed work there in GC-MS regarding insect substances and their identifications.  Currently Attygalle is attached to the Stevens Institute of Technology as a Research Professor in the Department of Chemistry and head of the mass spectrometry laboratory. Attygalle was the recipient of the 2014 ‘Inventor of the Year’ award presented by the New Jersey Inventors Hall of Fame for his patented work in Mass Spectrometric Analysis utilizing Helium Plasma and charge exchange ionization techniques. Attygalle co-authored the 1999 article “Single-Site Catalysts for Ring-Opening Polymerization:  Synthesis of Heterotactic Poly(lactic acid) from rac-Lactide” in the Journal of the American Chemical Society\, which has been widely cited. \n\n\n\nMultiple Personalities of Gaseous Ions \n\n\n\nFor mass spectrometry\, neutral molecules are converted to gaseous ions.   A mass spectrum is recorded by determining the mass-to-charge ratios and intensities of fragment ions generated by activating a specific ion. Many textbooks provide rules to identify molecules by interpreting their mass spectra.  All recommended interpretations start by presuming a specific structure for the initial ion.  However\, recent advances in ion-mobility methods demonstrate that an ensemble of ions with different structures are produced upon ionization. For example\, the most widely used electrospray ionization technique often generates a mixture of tautomeric forms of a precursor molecule.  Because fragmentation spectra of individual tautomers are often different from each other\, the spectra recorded without separating the isomeric mixtures are composites.  Although large collections of spectra are available as libraries\, the time has come to for us query of the quality of these compilations.                    \n\n\n\nHost: Kumari Ubhayasekera URL:https://www.scilifelab.se/event/scilifelab-the-svedberg-seminar-prof-athula-attygalle/ LOCATION:Online event via Zoom CATEGORIES:Event ORGANIZER;CN="The Svedberg Seminar Series":MAILTO:thesvedberg@scilifelab.uu.se END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210623T130000 DTEND;TZID=Europe/Stockholm:20210623T160000 DTSTAMP:20260407T135402 CREATED:20210601T073659Z LAST-MODIFIED:20210601T075456Z UID:10000394-1624453200-1624464000@www.scilifelab.se SUMMARY:SciLifeLab Workshop on Federated Machine Learning DESCRIPTION:Location: Online via Zoom\n\n\n\nProgram:\n\n\n\n13.00 – 13.45  Presentation: Introduction to Federated Machine Learning \n\n\n\n14.00 – 16.00  Hands-on workshop: How to set up\, run and deploy a federated learning project using the FEDn open source solution \n\n\n\nNote that it is possible to attend the first presentation only\, or both presentation and workshop. \n\n\n\nWhat is Federated Machine Learning?\n\n\n\n\nFederated learning enables several organizations / groups to collaborate on machine learning models without needing to directly share sensitive or confidential data with each other.It is a distributed machine learning approach which enables training on decentralised data. A server coordinates a network of nodes\, each of which has local\, private training data. These nodes contribute to the construction of a global model by training on local data\, and the server combines non-sensitive node model contributions into the global model. \n\n\n\nFor a short (10min ) introduction see: https://www.youtube.com/watch?v=jbLHRtGWPL8 \n\n\n\n\nWho should attend?\n\n\n\n1.Researchers who are interested in learning more about FedML \n\n\n\n2.Researchers who are interested in testing FedML hands-on in the FEDn solution \n\n\n\nAbout the organizers\n\n\n\nScaleout consists of a team of data scientists\, machine learning engineers\, software engineers\, and entrepreneurs with experience from both industry and academic research in AI and applied machine learning\, cloud and fog computing\, and scientific computing from Uppsala University. We’re working on a platform for end-to-end privacy-preserving machine learning with a focus on helping organisations put advanced machine learning and DevOps technologies into production. \n\n\n\nRegistration\n\n\n\nThe presentation and the workshop is free of charge but requires registration. The number of seats for the hands-on part of the workshop is limited to 20 people so only register for the workshop if you are interested in actively participating in the tutorial. \n\n\n\nContact: Prof. Ola Spjuth\, AI coordinator\, SciLifeLab Data Centre. \n\n\n\nRegister here URL:https://www.scilifelab.se/event/fedml/ LOCATION:Online event via Zoom CATEGORIES:Event END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210617T130000 DTEND;TZID=Europe/Stockholm:20210617T140000 DTSTAMP:20260407T135402 CREATED:20210503T143813Z LAST-MODIFIED:20210601T093048Z UID:10000378-1623934800-1623938400@www.scilifelab.se SUMMARY:Campus Solna Seminar Series: Woonghee Kim and Markus Hilscher DESCRIPTION:Introducing the new Campus Solna Seminar Series – a new initiative to promote the fantastic science ongoing at Campus Solna and hopefully forge more internal communication and collaboration between the alpha and gamma buildings. The format will be 2 short 15 min talks (1 speaker from alpha and 1 from gamma)\, with an additional 5 min of questions. Presentation of ongoing (unpublished) projects is strongly encouraged. \n\n\n\nThe seminars are held Thursdays 13:00-13:50 and following current regulations\, they will be broadcast via zoom. \n\n\n\n\n\n\nWoonghee Kim\n\n\n\nDrug discovery: Disease modeling and assessment of new small molecules for Non Alcoholic Fatty Liver Disease (NAFLD) \n\n\n\nAdil Mardinoglu\, Alpha 6 \n\n\n\n\n\nMarkus Hilscher\n\n\n\nBeyond a cell atlas – applications of in situ sequencing to models of disease \n\n\n\nMats Nilsson\, Gamma 4 \n\n\n\n\n\n\nRegister to receive the zoom-link. The same zoom link applies for all Campus Solna Seminar Series\, i.e. only one registration is necessary. \n\n\nPlease select a valid form URL:https://www.scilifelab.se/event/campus-solna-seminar-series-woonghee-kim-and-markus-hilscher/ CATEGORIES:Community ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se LOCATION: END:VEVENT BEGIN:VEVENT DTSTART;TZID=Europe/Stockholm:20210614T080000 DTEND;TZID=Europe/Stockholm:20210624T170000 DTSTAMP:20260407T135402 CREATED:20210503T140254Z LAST-MODIFIED:20210503T141941Z UID:10000375-1623657600-1624554000@www.scilifelab.se SUMMARY:RaukR\, Advanced R for Bioinformatics\, Summer course DESCRIPTION:International course. The course is open for researchers at university or in industry such as PhD students\, postdocs\, group leaders\, core unit staff and analysts.Apply hereCourse website \n\n\n\ncourse website\n\n\n\nThe course is organised by NBIS \n\n\n\nResponsible teachers: Marcin Kierczak\, Sebastian DiLorenzoContact: RaukR@NBIS.se \n\n\n\nImportant dates\n\n\n\nApplication deadline: Friday\, 23.04.2021\, 24:00 GMTNotification of acceptance/decline: Friday\, 30.04.2021 \n\n\n\nCourse fee\n\n\n\nAcademic: No fee this year. However\, if you register and will be admitted but you will not attend the event without a valid reason\, you will be charged a no-show fee (3000 SEK).Participants from outside of academia should contact us for a fee quote. \n\n\n\nCourse description\n\n\n\nJoin us online this June to improve your R skills and have a nice time!In Life Science and Bioinformatics\, R is increasingly being used to transform and analyse data\, perform statistical analysis and produce publication-ready visualisations. This Summer course will focus on advanced R functionality\, to increase the participants skillset and understanding of what is possible to do today. \n\n\n\nBig part of RaukR experience was coding and exchanging knowledge in a unique environment provided by Campus Visby in Gotland. Sadly\, due to COVID-19 outbreak\, RaukR 2020 did not happen. This year\, we still have to obey a number of restrictions and guidelines due to the outbreak. While we still cannot gather in Visby\, we decided to go online and we hope this year we will also learn a lot and have fun coding together! We wish you all the best. See you online! Stay safe and healthy! \n\n\n\nYou are very welcome to apply or see the homepage for more information. Please\, help us spread the word to interested participants! \n\n\n\nGuest speaker\n\n\n\nMax Kuhn (software engineer at RStudio) \n\n\n\nCourse content\n\n\n\nreproducible research in R (rmarkdown\, knitr)\,collaborative work using git and GitHub\, CD/CI\,R code style guidelines\,parallelization and vectorization in R\,writing own functions – best practices\,understanding and using the system of R classes: S3\, S4\, R6 and RC\,anatomy of an R package: writing your own package from scratch\,code debugging\, profiling and optimization\,tidy data flow with tidyverse\,efficient use of magrittr pipes\,using the language of graphics\, ggplot2\,developing simple web applications using shiny\,efficient modelingthe second week will be devoted to collaborative project workthe last day\, all groups will present their project work\n\n\n\nEntry requirements\n\n\n\nThe course is aimed at both Ph.D. students and researchers within Life Sciences who are already using R for basic bioinformatics analyses and who would like to start using R at a more advanced level. In order for you and other participants to benefit the most\, you should consider yourself eligible if you are comfortable with reading and transforming data\, installing and using third-party packages and plotting using standard R graphics. \n\n\n\nWe offer places for participants from all over the world\, but there is a number of places reserved for participants from Sweden. \n\n\n\nSelection criteria\n\n\n\nThis year\, the school can accommodate ~30 participants. Selection criteria include correct entry requirements\, motivation to attend the course as well as gender and geographical balance. This year\, we will also give priority to students who have already been admitted to RaukR 2020 (which had been cancelled). URL:https://www.scilifelab.se/event/raukr-advanced-r-for-bioinformatics-summer-course/ CATEGORIES:Course ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se LOCATION:https://www.scilifelab.se/event/raukr-advanced-r-for-bioinformatics-summer-course/ END:VEVENT END:VCALENDAR