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BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210929T090000
DTEND;TZID=Europe/Stockholm:20211001T130000
DTSTAMP:20260404T003922
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:20210930T130000
DTEND;TZID=Europe/Stockholm:20210930T140000
DTSTAMP:20260404T003922
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:20210930T130000
DTEND;TZID=Europe/Stockholm:20210930T150000
DTSTAMP:20260404T003922
CREATED:20210924T134253Z
LAST-MODIFIED:20210924T134331Z
UID:10000454-1633006800-1633014000@www.scilifelab.se
SUMMARY:SuperResolutionMiniSymposia
DESCRIPTION:13:00-13:50 Accessing the nanoscale with MINFLUXFrancisco Balzarotti (IMP Vienna)Topic: new super resolution light microscopy method to image proteins and DNA with 1 nm spatial resolution.Of interest for the imaging and biophysics community \n\n\n\n14-14:50Imaging more labels using ’smart’ probes and PSF engineeringPeter Dedecker (Leuven University)Topic: multiplexing light microscopy with smart probes and optical development. \n\n\n\n \n\n\n\nHybrid Meeting – Join in Air&Fire or Join Zoom Meeting: \n\n\n\nhttps://kth-se.zoom.us/j/61036958775?pwd=VVpXVmJDQUFzVCttR2FaNFY2Nm9zQT09Meeting ID: 610 3695 8775Password: 028016
URL:https://www.scilifelab.se/event/superresolutionminisymposia/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Event
ORGANIZER;CN="Ilaria Testa":MAILTO:ilaria.testa@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210930T170000
DTEND;TZID=Europe/Stockholm:20210930T173000
DTSTAMP:20260404T003922
CREATED:20210908T154652Z
LAST-MODIFIED:20210910T122137Z
UID:10000442-1633021200-1633023000@www.scilifelab.se
SUMMARY:Clinical Talks: Detect cancer early\, while it still can be cured
DESCRIPTION:On September 30\, Dr. Hyunsung John Kim\, will talk about the amazing potential RNA liquid biopsies can offer modern healthcare\, by detecting cancer early\, while it still can be cured. Resulting in a total transformation of cancer care\, ultimately allowing for a more efficient\, cost-effective\, and sustainable healthcare. While working as a senior Bioinformatician at Illumina\, John was part of the founding team who branched out GRAIL\, with its very promising Galleri multi-cancer early detection test soon to hit our Clinical reality.  \n\n\n\nRegister to receive zoom link\n\n\n\n\n\n\n\nJohn develops cloud computing tools that use machine learning and AI to generate biological insights from large clinically relevant datasets. He has worked in Next Generation Sequencing (NGS) and bioinformatics for over ten years in academic and industrial settings. \n\n\n\nHe started his career at the University of California at Santa Cruz where he received the Chancellor’s fellowship for designing new sequencing assays and algorithms for diagnostics and immunology. After receiving his PhD in Bioinformatics and Biomolecular Engineering\, John joined the Advanced Research group at Illumina. There he played a critical role in launching Illumina’s single cell product by developing the accompanying cloud-based bioinformatics software and was given the CEO award for his contributions. \n\n\n\nJohn departed from Illumina to make a significant impact on the fight against cancer by joining GRAIL Inc. as one of its founding members. At GRAIL\, he led a team of data scientists\, software engineers and statisticians as a bioinformatics technical lead. His team worked to gain a better understanding cell free nucleic acids and develop diagnostic products that detect cancer earlier than the current standard of care. John holds multiple patents and was an author on the first patent awarded to GRAIL. In addition\, he has co-authored peer-reviewed publications on his work related to the early cancer detection from cell free nucleic acids. \n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nClinical Talks Series\n\n\n\nAfter 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\nRead more about the clinical talk series here\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.
URL:https://www.scilifelab.se/event/clinical-talks-detect-cancer-early-while-it-still-can-be-cured/
LOCATION:Online event via Zoom
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:20210930T170000
DTEND;TZID=Europe/Stockholm:20210930T180000
DTSTAMP:20260404T003922
CREATED:20210923T084618Z
LAST-MODIFIED:20210923T092349Z
UID:10000452-1633021200-1633024800@www.scilifelab.se
SUMMARY:Raising our Voices - Vol. 3
DESCRIPTION:On Volume 3 of our Raising our Voices events we will discuss the diversity on science that goes beyond the visible. Renuka Kudva (project coordinator at NGI\, speaker) and Rebecca Howard (moderator) will discuss how to increase visibility of underrepresented identities in the SciLifeLab community and amplify the discussion on diversity\, equality and inclusion topics. \n\n\n\nplease register here\n\n\n\nProgram\n\n\n\n5 min – Welcome from DEI-SLL host: Alejandro 10 min – Personal narrative with slides: Renuka 15 min – Dialogue with prepared questions: Reba & Renuka25 min – Moderated audience questions: Reba & Renuka5 min – Thanks\, contact reminders\, upcoming announcements: Alejandro\n\n\n\nRenuka Kudva\, PhD\n\n\n\nProject Coordinator\, NGI \n\n\n\nI’m currently a Project Coordinator at NGI after a research career in the wet lab during my PhD and postdoc. I’ll cover my inspiration to study biology\, my experience navigating a research career as an immigrant scientist with an unseen disability\, how impostor syndrome can sometimes be a good thing\, and why I think science communication is closely intertwined with diversity\, equity\, and inclusion. \n\n\n\nHost: Alejandro Rodríguez Gijón \n\n\n\nModerator: Rebecca Howard
URL:https://www.scilifelab.se/event/raising-our-voices-vol-3/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Community
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211001T090000
DTEND;TZID=Europe/Stockholm:20211001T110000
DTSTAMP:20260404T003922
CREATED:20210902T060431Z
LAST-MODIFIED:20210902T060444Z
UID:10000424-1633078800-1633086000@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: Deadline for application: Tuesday\, September 28\, 2021. \n\n\n\nNotification about participation: The day before the session. \n\n\n\nNext Call4Help session \n\n\n\nFriday\, October 1\, 2021\, 9.00-12.00. Deadline for application: Tuesday\, September 28\, 2021.
URL:https://www.scilifelab.se/event/bioimage-informatics-call4help-4/
CATEGORIES:Event
ORGANIZER;CN="Bioimage Informatics Unit":MAILTO:biif@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211004T080000
DTEND;TZID=Europe/Stockholm:20211008T170000
DTSTAMP:20260404T003922
CREATED:20210603T125859Z
LAST-MODIFIED:20210603T130143Z
UID:10000397-1633334400-1633712400@www.scilifelab.se
SUMMARY:Introduction to biostatistics and machine learning - Online
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 date \n\n\n\nApplication open: nowApplication closes: 2021-08-21Confirmation to accepted students:  2021-09-01Responsible teachers:  Olga Dethlefsen\, Eva Freyhult \n\n\n\nIf you do not receive information according to the above dates please contact olga.dethlefsen@nbis.se\, eva.freyhult@nbis.se \n\n\n\n\n\n\n\n\nCourse website\n\n\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\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\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 25 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\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
URL:https://www.scilifelab.se/event/introduction-to-biostatistics-and-machine-learning-online/
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211004T151500
DTEND;TZID=Europe/Stockholm:20211004T161500
DTSTAMP:20260404T003922
CREATED:20210916T094629Z
LAST-MODIFIED:20210923T122426Z
UID:10000447-1633360500-1633364100@www.scilifelab.se
SUMMARY:The Svedberg seminar series: Ass. Prof. Daniel Espes
DESCRIPTION:SciLifeLab Fellow at Uppsala University \n\n\n\nLINK TO SEMINAR \n\n\n\n\n\n\n\n\n\nDaniel Espes received his completed his PhD at the Department of Medical Cell Biology\, Uppsala University\, in 2016 and became an Associate Professor (Docent) in Medical Cell Biology in 2019. In parallel with his research career he has worked actively as a clinical physician and became a specialist in internal medicine in 2019. In 2021 Espes joined as a SciLife Fellow and his translational group is focused on the development of clinically applicable techniques for assessing beta-cell mass alterations within the human pancreas during the development of diabetes. \n\n\n\nImagine Imaging Beta-Cell Mass\n\n\n\nType 1 diabetes is one of the most common chronic disease among children and adolescents. Due to the long-term complications associated with the disease the life-expectancy for those living with the disease is reduced by more than 10 years. Type 1 diabetes develops due to progressive loss of the insulin producing beta-cells following an immune attack. However\, the underlying trigger for the immune system is still unknown. At onset of hyperglycemia 60-70% of the beta-cell mass have already been lost\, based on data from autopsy studies. Currently there are no validated techniques for evaluating beta-cell mass in vivo in humans and hence our understanding of how beta-cell mass is altered in health and disease is limited to what we have learned from autopsy material. Our work is focused on establishing novel techniques for the quantification of beta-cell mass in order to increase our understanding of how diabetes develops as well as how beta-cell mass adapts in response to other conditions. In addition\, we are trying to better understand the immunological and metabolic interactions within the pancreas by combining imaging techniques with functional assessments. \n\n\n\nHost: Ass. Prof. Gustaf Christoffersson
URL:https://www.scilifelab.se/event/the-svedberg-seminar-series-assoc-prof-daniel-espes/
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:20211005T090000
DTEND;TZID=Europe/Stockholm:20211008T170000
DTSTAMP:20260404T003922
CREATED:20210503T141305Z
LAST-MODIFIED:20210503T141929Z
UID:10000376-1633424400-1633712400@www.scilifelab.se
SUMMARY:15th Nordic Photosynthesis Congress
DESCRIPTION:You are cordially invited to attend the NPC15 at the Conference Center Wallenberg\, Gothenburg in Sweden.The congress will highlight the latest discoveries in photosynthesis and related fields along with a view to the future of how to sustain the expanding life on our planet. Alongside presentations of biological results\, there will be methodological advances\, and students and postdocs are encouraged to apply for talks. \n\n\n\nNPC15 is the only physical photosynthesis conference in Europe this year. Therefore\, we specifically welcome all international photosynthesis researchers to attend our conference. \n\n\n\nTopics\n\n\n\nMetabolic engineering of carbon fixationStructure and function of photosynthetic complexesNovel methods to study photosynthesisRegulation of photosynthesisArtificial photosynthesis and hybrid systems\n\n\n\nConfirmed invited speakers\n\n\n\nKeynote lectureEva-Mari Aro\,University of Turku\, Finland \n\n\n\nMetabolic engineering and carbon fixationCecilia Blikstad\, Uppsala University\, SwedenPeter Lindblad\, Uppsala University\, Sweden \n\n\n\nStructure and function of photosynthetic complexesMatthew Johnson\,University of Sheffield\, UKNathan Nelson\,University of Tel Aviv\, Israel \n\n\n\nNovel methods to study photosynthesisBen Engel\, Helmholtz Zentrum Munich\, GermanyAlizée Malnoë\, Umeå University\, Sweden \n\n\n\nRegulations of photosynthesisUte Armbruster\, Max Planck Institute Golm\, GermanyRoberta Croce\, University of Amsterdam\, NetherlandsBill Rutherford\, Imperial College London\, UK \n\n\n\nArtificial photosynthesis and hybrid systemsKirstin Gutekunst\,University of Kiel\, GermanyMarc Robert\, Université de Paris\, France
URL:https://www.scilifelab.se/event/15th-nordic-photosynthesis-congress/
LOCATION:Conference Centre Wallenberg\, Medicinaregatan 20A\, Gothenburg\, 413 90\, Sweden
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211006T000100
DTEND;TZID=Europe/Stockholm:20211006T230000
DTSTAMP:20260404T003922
CREATED:20210914T123507Z
LAST-MODIFIED:20211006T084940Z
UID:10000446-1633478460-1633561200@www.scilifelab.se
SUMMARY:Application Open: Publishing workshop for junior researchers
DESCRIPTION:Applications are open to take part in this 3-part workshop series by Science and SciLifeLab for early career researchers (PhD students and postdocs) in SciLifeLab affiliated groups.  \n\n\n\nWorkshop leaders: \n\n\n\nValda Vinson (Editor\, Science Magazine)Sacha Vignieri (Deputy Editor for research\, Science Magazine)\n\n\n\nThis series is limited to a maximum 30 participants. Participants will be selected after applications close\, and selected participants will be notified shortly thereafter. The workshop is free of charge. \n\n\n\nRegistered participants must attend all three sessions of the workshop. The topics covered all relate to publishing\, in particular: “Before you submit”\, “Life of the paper”\, and “the publishing landscape”. \n\n\n\nWorkshop 1 – Thursday\, 4th of November\, 16:00-17:30 CETWorkshop 2 – Thursday\, 11th of November\, 16:00-17:30 CETWorkshop 3 – Thursday\, 18th of November\, 16-17:30 CET\n\n\n\nDeadline for application: October 6\, 2021. Selected participants will be notified shortly thereafter. \n\n\n\napply here\n\n\n\nPlease note that this workshop series is only open to SciLifeLab affiliated groups.  \n\n\n\n\n\n\n\nContent\n\n\n\n\n\nBefore you submit\n\n\n\n\n\nLife of the paper\n\n\n\n\n\nThe publishing landscape\n\n\n\n\n\n\n\nPart A \n\n\n\nQuick background      Authorship      Picking a journal       Planning ahead  \n\n\n\n\n\nPart A \n\n\n\nCover Letter     Title/Abstract     Process at Science\n\n\n\n\n\nPart A – Within Science \n\n\n\nWhat happens after acceptance     Promoting your paper\n\n\n\n\n\n\n\nPart B \n\n\n\nStructure your paper Dos and Don’ts Data presentation/visualization/statistics Data accessibility\n\n\n\n\n\nPart B \n\n\n\nReview process     Writing a review     Responding to reviews\n\n\n\n\n\nPart B – More Broadly \n\n\n\nTowards reproducibilityOpen access and preprintsMeasuring Impact\n\n\n\n\n\n\n\n\n\n\n\n\n\nEach session will be 1 hour 25 minutes long with the following structure: \n\n\n\n25 minute talk + 10 minute Q&A25 minute talk + 10 minute Q&A15 minute wrap up + general questions\n\n\n\nAll workshop sessions will take place virtually on the Zoom platform.
URL:https://www.scilifelab.se/event/publishing-workshop-for-junior-researchers/
LOCATION:Online event via Zoom
CATEGORIES:Community,Course
ORGANIZER;CN="Science/AAAS and SciLifeLab":MAILTO:events@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211007T110000
DTEND;TZID=Europe/Stockholm:20211007T120000
DTSTAMP:20260404T003922
CREATED:20210930T131922Z
LAST-MODIFIED:20210930T132333Z
UID:10000458-1633604400-1633608000@www.scilifelab.se
SUMMARY:The current state of modeling protein motions : from physics to AI
DESCRIPTION:Location \n\n\n\nKinnekulle\, alfa 5\, Scilifelab (limited seatings) \n\n\n\n \n\n\n\n\n\n \n\n\n\nOnline \n\n\n\njoin zoom meeting\n\n\n\n \n\n\n\n \n\n\n\n\n\nInvited speaker: \n\n\n\nSergei Grudinin\, LJK CNRS Grenoble\, France\n\n\n\nArtificial intelligence\, and more specifically deep learning\, has recently emerged as a powerful approach to exploit the massive amounts of protein sequence and structure data available nowadays toward guiding biological intervention to improve human health. A couple of months ago\, the alphaFold2 architecture from DeepMind revolutionised the field of protein structure prediction by reaching unprecedented levels of near-experimental accuracy. This achievement has been made possible mostly thanks to the latest improvements in geometric learning and natural language processing (NLP) techniques.  \n\n\n\nWhile the problem of determining how a protein folds in three dimensions (3D) is essentially solved\,  accessing protein motions is becoming more central than ever before [1]. At the European level\, the ELIXIR community is investing efforts right  now to create a comprehensive resource for structural diversity and flexibility in the Protein Data Bank (PDB)\, which contains all experimentally-determined protein 3D structures. Indeed\, proteins are flexible biological objects\, constantly moving and changing their shape to interact with their environment and cellular partners. This inherent flexibility is highly relevant for protein functioning. Experimentally\, it is very difficult to observe proteins directly in action\, and we have mostly access to isolated clusters of “snapshots” (conformations) representative of a few functional states.  \n\n\n\nI will present relatively simple physics-based models developed in our team\, where the protein is represented by an elastic network. They have proven very useful to nonlinearly extrapolate functional motions\, starting from a single structure and predict structural protein transitions [2-4]. I will also show an extension of these developments to construct a multi-level representation of protein flexibility. Then\, I will outline the current state of AI methods to model protein structural heterogeneity and connect it with the physics-based models. \n\n\n\nReferences \n\n\n\n[1] Laine\, Elodie\, et al. “Protein sequence-to-structure learning: Is this the end (-to-end revolution)?.” Proteins in Press (2021).[2] Laine\, Elodie\, and Sergei Grudinin. “HOPMA: Boosting protein functional dynamics with colored contact maps.” The Journal of Physical Chemistry B 125.10 (2021): 2577-2588.[3] Grudinin\, Sergei\, Elodie Laine\, and Alexandre Hoffmann. “Predicting protein functional motions: an old recipe with a new twist.” Biophysical journal 118.10 (2020): 2513-2525.[4] Hoffmann\, Alexandre\, and Sergei Grudinin. “NOLB: Nonlinear rigid block normal-mode analysis method.” Journal of chemical theory and computation 13.5 (2017): 2123-2134.
URL:https://www.scilifelab.se/event/the-current-state-of-modeling-protein-motions-from-physics-to-ai/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211007T120000
DTEND;TZID=Europe/Stockholm:20211007T160000
DTSTAMP:20260404T003922
CREATED:20210914T121516Z
LAST-MODIFIED:20211006T120806Z
UID:10000445-1633608000-1633622400@www.scilifelab.se
SUMMARY:Genomics platform online retreat
DESCRIPTION:Welcome to the online retreat for the SciLifeLab Genomics platform staff. Our platform is a key player on life science in Sweden and have recently had a change of leadership. Join the meeting to catch up with the latest developments and future plans for the platform\, and participate in discussions about our organization and activities. Make sure to sign up to receive your complimentary fika package\, which we hope will facilitate a fun meeting! \n\n\n\nTo facilitate interaction\, we recommend that participants connect to the meeting individually and not in group. \n\n\n\n\n\n\n\nsign up here\n\n\n\nRegistration is closed \n\n\n\n \n\n\n\n\n\n\n\nProgram\n\n\n\n12:00Welcome and presentation about of the platform\, organization and plans for the future.Annika Jenmalm Jensen\, SciLifeLab Infrastructure DirectorTuuli Lappalainen\, Director of the Genomics platform and NGILars Feuk\, Co-Director of the Genomics platform12:30Update from the National Genomics InfrastructureEllen Sherwood\, Director of NGI SthlmJessica Nordlund\, Director of SNP&SEQ12:50Update from the Microbial Single Cell Genomics unitJohan Ankarklev\, Director of Microbial Single Cell Genomics13:00Update from the Ancient DNA unitMagnus Lundgren\, Head of Ancient DNA13:10Short break13:15Scientific Keynote Mark Daly\, University of Helsinki\, Broad Institute14:00Break14:15Group discussions on Genomics platform organization and activities16:00Meeting ends
URL:https://www.scilifelab.se/event/genomics-platform-online-retreat/
LOCATION:Online event via Zoom
CATEGORIES:Community
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211007T130000
DTEND;TZID=Europe/Stockholm:20211007T140000
DTSTAMP:20260404T003922
CREATED:20210903T120948Z
LAST-MODIFIED:20210921T155455Z
UID:10000427-1633611600-1633615200@www.scilifelab.se
SUMMARY:Campus Solna Seminar Series: Xuexin Li and Steven Edwards
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\n Identifying drugs that alleviate the toxicity of polyQ toxicityXuexin Li (Oscar Fernandez-Capetillo\, alpha 4)  \n\n\n\nMeasuring NK cell infiltration in a tumour spheroid modelSteven Edwards (Hjalmar Brismar\, 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-xuexin-li-and-steven-edwards/
CATEGORIES:Community
ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211011T151500
DTEND;TZID=Europe/Stockholm:20211011T163000
DTSTAMP:20260404T003922
CREATED:20210927T110517Z
LAST-MODIFIED:20211005T080643Z
UID:10000455-1633965300-1633969800@www.scilifelab.se
SUMMARY:The Svedberg seminar series: Prof.  Paolo Parini
DESCRIPTION:Theme Inflammation and Ageing\, Karolinska University Hospital\, \n\n\n\nDepartment of Laboratory Medicine and Department of Medicine \n\n\n\nKarolinska Institutet at Huddinge University Hospital\, \n\n\n\n\n\nLINK TO SEMINAR \n\n\n\n \n\n\n\n \n\n\n\n\n\n\n\n\n\nProf. Paolo Parini gained his MD degree in 1990 at the Universita’ di Bologna\, Italy. In 1994 he obtained his specialization in Gastroenterology and Hepatology (Universita’ di Bologna\, Italy). The same year Parini was registered as PhD-student at the Karolinska Institutet\, Sweden\, under the supervision of Prof Mats Rudling and Prof Bo Angelin. In 1999\, he obtained his PhD defending a thesis entitled “Hormonal regulation of hepatic cholesterol and lipoprotein metabolism: effects of estrogen and growth hormone” and since then his research activities are focused on the different aspect of lipoprotein metabolism in humans and in preclinical models. \n\n\n\nNetwork Medicine Approach to Atherosclerosis\n\n\n\nDuring the last several decades non-communicable diseases (NCDs) have dramatically increased deaths globally. One of the most prevalent NCD\, atherosclerotic cardiovascular disease (ASCVD) and cardiometabolic disease (CMD)\, are now major global health threats and socioeconomic burdens. Combined Hyperlipidemia (CH) is the most common form of hyperlipidemia and impacts longevity by promoting ASCVD\, CMD. Conventional ‘omics studies\, designed to find simple associations between genotype and phenotype in large datasets\, are inherently incapable of unraveling the complex pathobiology underlying diseases. Using network analysis\, we aim to describe the effects of the peripheral lipoprotein phenotypes of CH described in a multidimensional space by modules of functional interactions\, using patients from different existing cohorts to understand whether CH drives accelerated biological ageing\, estimated by analysis of the epigenome (DNA-methylation) in conjunction with specific ICD-10 diagnoses and treatments as a function of chronological age. We plan to integrate data of different nature [e.g.\, genetic\, epigenetic\, biochemistry\, national registries\, and electronic health record (EHR)\, and patient reported outcome measures (PROM) questionnaires]. As initial proof-of-concept\, we have created novel multi-source networks in which single-source analyses (i.e.\, liver transcriptomics and epigenomics) are integrated with biochemical parameters and lipoprotein functionality in combination with  Dr. Joseph Loscalzo´s human PPI Personal Protein I. Patients were from the Stockholm Study\, in non-obese\, normolipidemic\, gallstone patients (66% female) were randomized to a 4-week treatment with simvastatin 80 mg/day and ezetimibe 10 mg/day\, alone or in combination\, or to placebo. The first network mining has already indicated a constant and previously unknown interaction between a key gene in cholesterol metabolism and TMBIM6\, a transmembrane protein involved in autophagy and cancer information contained in the multi-source networks. Validation studies of this initial finding in going on in Soat2-only HepG2 cells\, a unique pre-clinical model which more closely resembles human lipoprotein metabolism created by us. \n\n\n\nHost: Olli Kallioniemi\, SciLifeLab Director
URL:https://www.scilifelab.se/event/the-svedberg-seminar-series-prof-paolo-parini/
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:20211012T080000
DTEND;TZID=Europe/Stockholm:20211014T170000
DTSTAMP:20260404T003922
CREATED:20210901T133811Z
LAST-MODIFIED:20211011T141253Z
UID:10000422-1634025600-1634230800@www.scilifelab.se
SUMMARY:Introduction to Data Management Practices
DESCRIPTION:National course open for PhD students\, postdocs\, researchers and other employees within all Swedish universities. This course will introduce important aspects of Research Data Management through a series of lectures and hands-on computer exercises. The course is intended for researchers that want to take the first steps towards a more systematic and reproducible approach to analysing and managing research data. \n\n\n\nNote: We follow the recommendations and guidelines from Swedish authorities and Folkhälsomyndigheten. The course is designed to be an interactive face-to-face event. However\, we follow the situation carefully and will deliver the course online if needed. \n\n\n\nImportant dates\n\n\n\nApplication opens: 2021-09-01Application closes: 2021-09-29Confirmation to accepted students: 2021-09-30 \n\n\n\nContact\n\n\n\nedu.intro-dm@nbis.se \n\n\n\n\n\n\n\n\nCourse website\n\n\n\nApplication form\n\n\n\n\n\n\n\n\nCourse fee\n\n\n\n1700 SEK paid by invoice to NBIS. This includes lunches\, coffee and snacks. Please note that NBIS cannot invoice individuals. \n\n\n\nDue to limited space the course can accommodate a maximum of 15 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\nEntry requirements\n\n\n\nNo previous programming experience is required but you are required to bring your own laptop with the required software pre-installed. Installation instructions will be provided before the course starts. \n\n\n\nCourse content\n\n\n\nTopics covered will include: \n\n\n\nOpen Science and FAIR in practiceOrganising data\, files and folders in research projectsVersioning data\, documents and scripts with GitDescribing data with metadataCleaning tabular data and metadata with OpenRefineSubmitting data to public data repositoriesWriting basic recipes for data analysis and visualisation with R (Links to an external site.)\n\n\n\n\n\n\n\nLearning objectives: \n\n\n\nTo get acquainted with\, and reflect upon\, the principles of Open Science and FAIRTo understand the importance of metadata\, and how it affects “FAIRness”To learn how to organise files to make project work more efficientTo learn to clean up messy tabular data and metadataTo learn how to find\, and submit to\, relevant public repositories for data publicationTo learn to apply simple version control practices on filesTo learn to start using R to analyse data
URL:https://www.scilifelab.se/event/introduction-to-data-management-practices/
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:20211012T113000
DTEND;TZID=Europe/Stockholm:20211013T140000
DTSTAMP:20260404T003922
CREATED:20210921T160901Z
LAST-MODIFIED:20210921T160953Z
UID:10000449-1634038200-1634133600@www.scilifelab.se
SUMMARY:3rd StorM Program Retreat
DESCRIPTION:We would like to advertise the 3rd StorM program retreat\, which will take place on October 12-13th at Krusenberg Herrgård\, Uppsala\, Sweden. \n\n\n\nThe 3rd STorM Retreat ScheduleDownload
URL:https://www.scilifelab.se/event/3rd-storm-program-retreat/
LOCATION:Krusenberg Herrgård\, KRUSENBERG 436\, Uppsala\, 755 98
CATEGORIES:Community
ORGANIZER;CN="Swedish Tumor Microenvironment program":MAILTO:elena.chugunova@igp.uu.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211012T113000
DTEND;TZID=Europe/Stockholm:20211013T140000
DTSTAMP:20260404T003922
CREATED:20260305T085613Z
LAST-MODIFIED:20260305T104147Z
UID:10001764-1634038200-1634133600@www.scilifelab.se
SUMMARY:StorM Retreat 2026
DESCRIPTION:Welcome to the 2026 years STorM retreat \n\n\n\nAugust 26-27 \n\n\n\nVenue: Linköping University and Ekoxen Hotel\, Linköping\, Sweden \n\n\n\nThe Swedish Tumor Microenvironment (STorM) network leverages the power of internationally leading research groups in the field spanning across the entire country. The overarching aim of the program is to identify novel communication pathways within the tumor microenvironment that can be exploited as cancer drug targets and biomarkers. The program will foster cross-disciplinary studies which optimally combines experimental studies in cell and animal models\, correlative analyses of clinical samples\, and cutting-edge technology. \n\n\n\nRegistration deadline: April 19 \n\n\n\n\nRegister here\n\n\n\n\n\n\n\n\nProgram\n\n\n\n6th SToRM retreat programDownload\n\n\n\nSuggestions for accommodation (not covered by STorM) \n\n\n\nQuality Hotel Exoxen (location of the meeting\, close to LiU medical campus and hospital) \n\n\n\nElite Stora Hotellet (very central between railway station and meeting location\, walking distance) \n\n\n\nAnd Hotel (less central\, few min walking to meeting location\, closest to dinner location) \n\n\n\nPartners \n\n\n\nCancerfonden\, SciLifeLab Linköping\, Linköping University \n\n\n\nOrganizing committee \n\n\n\n \n\n\nLinda Bojmar\, Assistant Professor\, Docent\, Linköping University (Chair) \nCarolin Jönsson\, Research Engineer\, Linköping University \nJosefine Sandström\, Research Coordinator\, SciLifeLab\, Linköping University \nIkuan Sam\, Postdoctoral fellow\, Lund University \nDaniel Reed\, Postdoctoral fellow\, Lund University \nAnastasia Knyazeva\, Postdoctoral Fellow\, Umeå University \nHong Qian\, Professor\, Karolinska Institute
URL:https://www.scilifelab.se/event/storm-retreat-2026/
LOCATION:Quality Hotel Ekoxen\, Linköping\, Klostergatan 68\, Linköping\, 582 23\, Sweden
CATEGORIES:Community
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211014T130000
DTEND;TZID=Europe/Stockholm:20211014T140000
DTSTAMP:20260404T003922
CREATED:20210903T121248Z
LAST-MODIFIED:20210929T143622Z
UID:10000428-1634216400-1634220000@www.scilifelab.se
SUMMARY:Campus Solna Seminar Series: Su Wang and Petter Sätterskog
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\nRevealing the radial organization of mitotic chromosomes by mGPSeqSu Wang (Magda Bienko\, Alpha 4) \n\n\n\nA generative model of a tumor microenvironmentPetter Sätterskog (Jean Hausser\, Alpha 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-su-wang-and-petter-satterskog/
CATEGORIES:Community
ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211015T090000
DTEND;TZID=Europe/Stockholm:20211015T093000
DTSTAMP:20260404T003922
CREATED:20210921T171433Z
LAST-MODIFIED:20211014T114429Z
UID:10000450-1634288400-1634290200@www.scilifelab.se
SUMMARY:Clinical Talks: Playing your way to healthy life
DESCRIPTION:On October 15\, it’s our great pleasure to host Professor Emma Lundberg once again. This time she will focus her Talk on her innovative company Mindforce GameLab. With the Fig platform\, patients can via gamification transform into “playtients”\, people with medical conditions who enjoy playing games with a purpose to establish healthy habits. Fig guides you on the journey to better health\, including improved behavioral administration of medicals for intended and sustainable use. \n\n\n\nEmma Lundberg SciLifeLab. \nFoto © Daniel Roos\n\n\n\nEmma is a Professor in cell biology proteomics at KTH Royal Institute of Technology\, Sweden\, and Director of the Cell Atlas\, part of the Human Protein Atlas program. She spent two and half sabbatical years as visiting Associate Professor at Stanford School of Medicine and the Chan-Zuckerberg Biohub. In the interface between bioimaging\, proteomics and artificial intelligence her research aims to define the spatiotemporal organization of the human proteome at a subcellular level\, with the goal to understand how variations and deviations in protein expression patterns can contribute to cellular function and disease.  \n\n\n\nShe also has a keen interest\, passion\, and fascination in the use of gaming for science and health applications. This led Emma to start her own company in 2017\, Skellefteå based Mindforce Game Lab\, with the goal to unleash the powerful potential gamification could offer medical healthcare. Simply phrased\, medicines will not work if people do not take them. Despite this\, only every other person takes their medication as prescribed. This is a fundamental challenge for treating many chronic diseases\, in terms of patient outcomes\, as well as the overall burden on healthcare systems. Although there are products that help patients with extrinsic motivations\, such as reminders and notifications\, Mindforce Game Lab focuses on intrinsic motivations; designing games that build in feelings of companionship\, belonging and purpose. Patients learn how healthy routines\, such as sleeping well\, eating well\, exercising regularly\, and adhering to prescribed medication\, can improve feelings of well-being. This builds an inner driving force to want to change behaviour and to maintain a healthy lifestyle. In late 2020 Mindforce Game Lab joined the AstraZeneca BioVentureHub and relocated the development team to Gothenburg. \n\n\n\nRegister to receive zoom link\n\n\n\n\n\n\n\nAfter 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\nRead more
URL:https://www.scilifelab.se/event/playing-your-way-to-healthy-life/
LOCATION:Online event via Zoom
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2021/09/ClinicalTalks_Emma-Lundberg_1024-1.jpg
ORGANIZER;CN="Clinical Talks":MAILTO:precisionmedicine@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211015T093000
DTEND;TZID=Europe/Stockholm:20211015T113000
DTSTAMP:20260404T003922
CREATED:20210922T144136Z
LAST-MODIFIED:20210922T173935Z
UID:10000451-1634290200-1634297400@www.scilifelab.se
SUMMARY:Virtual coffee drop in session - COVID-19 Data &  Code Reuse Competition 
DESCRIPTION:Location: Online via Zoom\n\n\n\nThe Swedish COVID-19 Data Portal invites you to join us for a Virtual coffee drop-in session and discussion about COVID-19 Data & Code Reuse Competition submissions. Take this opportunity to get support and ask questions about your ideas\, planned or  already started project for the competition. Drop-in for a chat with us and other participants\, we look forward to meet you. \n\n\n\nAbout the COVID-19 Data & Code Reuse Competition \n\n\n\nThe Swedish COVID-19 Data Portal invites researchers and general public to take part in the COVID-19 Data & Code Reuse Competition. Participants should complete small-scale projects that make use of publicly shared data and/or code to combat the COVID-19 pandemic or any future pandemics. \n\n\n\nWe welcome various types of project. The projects could\, for example\, involve the re-analysis of existing publicly available data using a different method\, or focus on a different aim\, or reuse publicly shared code to process a new set of data. Other possibilities include projects that produce individual visualizations\, dashboards presenting publicly shared data in a novel way or web-services devoted to data and analysis. The emphasis of the projects submitted should be to maximize the utility of existing data and/or code. \n\n\n\n\n\n\n\nRegister before October 14 to receive the Zoom link and allow planning of resources \n\n\n\nContact: SciLifeLab Data Centre\, datacentre@scilifelab.se \n\n\n\nRegister here
URL:https://www.scilifelab.se/event/virtual-coffee-drop-in-session-covid-19-data-code-reuse-competition/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211018T080000
DTEND;TZID=Europe/Stockholm:20211022T170000
DTSTAMP:20260404T003922
CREATED:20210602T093819Z
LAST-MODIFIED:20210602T094321Z
UID:10000395-1634544000-1634922000@www.scilifelab.se
SUMMARY:Python programming with applications to bioinformatics - ONLINE
DESCRIPTION:National course open for PhD students\, postdocs\, researchers and other employees in need of fundamental Python skills within all Swedish universities. \n\n\n\n\n\n\n\n\nApplication\n\n\n\n\n\n\n\n\nImportant dates \n\n\n\nApplication opens: June 21Application closes: September 4Confirmation to accepted students: September 8Responsible teachers: Nina Norgren\, Dimitris Bampalikis \n\n\n\nIf you do not receive information according to the above dates please contact: Nina Norgren (edu.intro-python@nbis.se) \n\n\n\nCourse fee \n\n\n\nNo course fee will be invoiced for online courses. However\, if you accept a position at the course and do not participate (no-show) you will be invoiced 2000 SEK.*Please note that NBIS cannot invoice individuals \n\n\n\nCourse description \n\n\n\nThis course provides a practical introduction to the writing of Python programs for the complete novice. Participants are led through the core aspects of Python illustrated by a series of example programs. Upon completion of the course\, attentive participants will be able to write simple Python programs from scratch and to customize more complex code to fit their needs. \n\n\n\nCourse content \n\n\n\nCore concepts about Python syntax: Data types\, blocks and indentation\, variable scoping\, iteration\, functions\, methods and argumentsDifferent ways to control program flow using loops and conditional testsRegular expressions and pattern matchingWriting functions and best-practice ways of making them usableReading from and writing to filesCode packaging and Python librariesHow to work with biological data using external libraries.\n\n\n\n\n\n\n\nLearning outcomes \n\n\n\nDescribe and apply basic concepts in Python\, such as:LoopsIf/else statementsFunctionsReading/writing to filesBeing able to edit and run Python codeWrite file-processing Python programs that produce output to the terminal and/or external filesCreate stand-alone python programs to process biological dataKnow how to develop your skills in Python after the course (including debugging)\n\n\n\nFormat \n\n\n\nPresentations and demonstrations. Practical exercises (either in the lab with assistants or on your own). Presentations will be given online\, mixed with exercises where teaching assistants will be available online to help with the exercises. \n\n\n\nEntry requirements \n\n\n\nThe course is suitable for complete beginners and assumes no prior programming experience (beyond the ability to use a text editor). A very basic knowledge of UNIX would be an advantage\, such as navigating through folders and issuing commands at a shell prompt. We will not teach UNIX in detail: Other courses are available at SciLifeLab for it. Make sure your laptop has python installed for the practical exercises. \n\n\n\nDue to limited space the course can accommodate a maximum of 30 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\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/python-programming-with-applications-to-bioinformatics-online/
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211018T151500
DTEND;TZID=Europe/Stockholm:20211018T161500
DTSTAMP:20260404T003922
CREATED:20210916T151516Z
LAST-MODIFIED:20210927T100311Z
UID:10000448-1634570100-1634573700@www.scilifelab.se
SUMMARY:The Svedberg seminar series: Ass. Prof. Prashant Singh
DESCRIPTION:SciLifeLab Fellow at Uppsala University \n\n\n\nLINK TO SEMINAR \n\n\n\n\n\n\n\n\n\nPrashant Singh is a SciLifeLab fellow and Assistant Professor hosted by the Division of Scientific Computing\, Department of Information Technology\, Uppsala University. His research interests involve developing machine learning and optimization methods to enable fast\, data-efficient analysis and processing of scientific data\, particularly in the domain of life sciences. \n\n\n\nScalable Likelihood-Free Parameter Inference of Stochastic Biochemical Reaction Networks\n\n\n\nAbstract: Parameter inference of stochastic time series models\, such as gene regulatory networks in the likelihood-free setting is a challenging task\, particularly when the number of parameters to be inferred is large. Recently\, data-driven machine learning models (neural networks in particular) have delivered encouraging results towards addressing the scalability\, efficiency and parameter inference quality of the likelihood-free parameter inference pipeline. In particular\, this talk will present a detailed discussion on neural networks as trainable\, expressive and scalable summary statistics of high-dimensional time series for parameter inference tasks. \n\n\n\nReference: \n\n\n\nM. Akesson\, P. Singh\, F. Wrede and A. Hellander\, “Convolutional Neural Networks as Summary Statistics for Approximate Bayesian Computation\,” in IEEE/ACM Transactions on Computational Biology and Bioinformatics\, doi: 10.1109/TCBB.2021.3108695. \n\n\n\nHost: Prof. Elisabeth Larsson\, Uppsala University
URL:https://www.scilifelab.se/event/the-svedberg-seminar-series-assoc-prof-prashant-singh/
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:20211019T143000
DTEND;TZID=Europe/Stockholm:20211022T183000
DTSTAMP:20260404T003922
CREATED:20210524T143123Z
LAST-MODIFIED:20211007T121821Z
UID:10000392-1634653800-1634927400@www.scilifelab.se
SUMMARY:International Advisory Board meeting 2021
DESCRIPTION:The site visit has become a digital Zoom meeting. We welcome the International Advisory Board (IAB) of SciLifeLab to a 4-day meeting on October 19-22\, 2021. During the meeting\, we will discuss and seek guidance about SciLifeLab and its future plans. A background report\, prepared by the SciLifeLab management\, is sent to the IAB members. \n\n\n\n \n\n\n\n\nIAB Program\n\n\n\n\n\n\n\n\n\n\n\n\nPicture taken during the IAB visit in 2019. Left to right\, back to front row: Svante Pääbo\, Jonathan Knowles\, Yoshihide Hayashizaki\, Jo Bury\, Carl-Henrik Heldin\, Jan Ellenberg\, Annika Jenmalm Jensen\, Olli Kallioniemi\, Sarah Teichmann\, Sirpa Jalkanen\, Janet Jansson and Sören Brunak.
URL:https://www.scilifelab.se/event/international-advisory-board-meeting-2021/
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211020T080000
DTEND;TZID=Europe/Stockholm:20211022T170000
DTSTAMP:20260404T003922
CREATED:20210714T131729Z
LAST-MODIFIED:20210714T133644Z
UID:10000405-1634716800-1634922000@www.scilifelab.se
SUMMARY:Cryo-EM sample preparation and data collection
DESCRIPTION:The purpose of the course is to prepare and train Cryo-EM unit users in sample preparation methods\, introduce users to the image data acquisition workflow\, expand knowledge about cryo-EM methods among researchers and show that everyone can learn how to use cryo-EM for structure and cell biology. \n\n\n\nThe course is open for unit users or potential unit users\, such as PhD students\, postdocs\, and researchers within the life sciences who are curious and will profit from cryo-EM skills. Swedish and international course participants are welcome. To attend\, the course participants must have experience in basic electron microscopy and be familiar with structure or cell biology. \n\n\n\nThis course is supported by SciLifeLab\, CryoNET and Umeå University and organized by the SciLifeLab Cryo-EM unit\, both UmU and SU nodes together. \n\n\n\nImportant dates\n\n\n\nApplication should be submitted before September 17\, 2021 \n\n\n\nConfirmation to accepted participants: September 22\, 2021(If you don’t receive information about your application before September 27\, please contact hussein.haggag@umu.se \n\n\n\n\n\n\n\n\nCourse website\n\n\n\nApplication\n\n\n\n\n\n\n\n\nCourse organizers\n\n\n\nCamilla Holmlund and Michael Hall \n\n\n\nTeachers and course instructors\n\n\n\nLinda SandbladMichael HallLars-Anders CarlsonCamilla HolmlundAdditional teachers t.b.a\n\n\n\nSocial program\n\n\n\nA social program depending on the current corona restrictions will be communicated to the participants after acceptance.  \n\n\n\nCourse fee\n\n\n\nA course fee of 800 SEK\, including coffee and lunches\, will be invoiced to accepted participants after acceptance. \n\n\n\nCourse content\n\n\n\nThis course will cover practical aspects of cryo-EM sample preparation and data acquisition. \n\n\n\nTopics covered: \n\n\n\nBasic theory of vitreous water\, how to handle a cryo sample and consequencesPlunge freezing methods\, tools and cryo-transferSample and instrument requirements for single particle and tomography methodsImage data acquisition\, concept of low dose and the cryo-specific workflowIntroduction to automatic data acqui­sition software\, EPU\, TomographyIntroduction to cryo-EM image processing methods\n\n\n\nThe course consists of lectures\, cryo lab work\, demonstrations and practical exercises for all participants\, hands-on experiences of microscopy operation and discussions. A detailed schedule will be provided to accepted participant. \n\n\n\nCourse literature\n\n\n\nHandouts and material online. \n\n\n\nEntry requirements\n\n\n\nPriority will be given to researchers involved in project where the use of cryo-EM is needed\, which are to be briefly described upon application. \n\n\n\nThe course will be held at an advanced level\, assuming that participants have a master’s degree or equivalent in a technical life science discipline. It aims to be relevant for a broad research community\, also to participants not working in research environments using cryo-EM today. \n\n\n\nA maximum of 15 participants will be admitted. Selection criteria include correct entry requirements\, motivation to attend the course as well as gender balance. \n\n\n\nExamination \n\n\n\nParticipation in all parts of the course\, lectures\, lab\, microscopy demonstrations and evaluation are mandatory. SciLifeLab and Umeå University will provide successful participants with a course certificate and a recommendation for 1 ECTS \n\n\n\nPlease note that SciLifeLab training courses do not provide any formal university credits.The course 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 course application\, whether the course is valid for formal credits or not.
URL:https://www.scilifelab.se/event/cryo-em-sample-preparation-and-data-collection/
CATEGORIES:Course
ORGANIZER;CN="UCEM Ume%C3%A5":MAILTO:hussein.haggag@umu.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211021T130000
DTEND;TZID=Europe/Stockholm:20211021T140000
DTSTAMP:20260404T003922
CREATED:20210903T121706Z
LAST-MODIFIED:20211005T092652Z
UID:10000429-1634821200-1634824800@www.scilifelab.se
SUMMARY:Campus Solna Seminar Series: Wen Zhong and Oskar Kviman
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\nNext-generation plasma proteome profiling to monitor health and diseaseWen Zhong (Linn Fagerberg\, alpha 6)  \n\n\n\n \n\n\n\nEnsembles of Variational ApproximationsOskar Kviman (Jens Lagergren\, 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/campus-solna-seminar-series-wen-zhong-and-oskar-kviman/
CATEGORIES:Community
ORGANIZER;CN="SciLifeLab Solna PhD & Postdoc Council":MAILTO:phd-council@scilifelab.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211021T143000
DTEND;TZID=Europe/Stockholm:20211021T151500
DTSTAMP:20260404T003922
CREATED:20211005T093455Z
LAST-MODIFIED:20211005T093615Z
UID:10000461-1634826600-1634829300@www.scilifelab.se
SUMMARY:[Big Talks] – Transposon Genomics — From Single Loci To Single Cells
DESCRIPTION:Invited speaker \n\n\n\nMolly Gale Hammell\, Associate Professor\, Cold Spring Harbor Laboratory\, USA \n\n\n\n \n\n\n\nAbstract\n\n\n\nTransposable Elements (TEs) are sequences in the human genome that have (or once had) the ability to mobilize from one location in the genome to another. Most of the TEs that currently exist in the human genome are fixed and unable to mobilize\, but many of these sequences have some residual level of functionality. These residual functions might include: the ability to bind DNA- or RNA-binding factors and act as regulatory elements\, the ability to generate RNA transcripts\, and/or the ability to encode proteins. Because TEs are extremely abundant in the human genome\, covering nearly 45% of the sequence space\, active TEs can have a large\, and often deleterious\, impact on host cell function. Multiple studies have shown aberrant elevation of TE expression in aging-associated diseases\, such as neurodegeneration and cancer. However\, establishing a causal role for TE activity in these contexts requires tracking down the individual TE loci that are active\, and distinguishing these from the thousands of other TE loci that are silent and/or non-functional. This is still an unsolved problem in the field of transposon genomics\, but new tools and technologies are making the problem more tractable. These include long-read technologies\, and improved statistical methods for analyzing TE expression and integrating TE multi-omics datasets. Once aberrantly active TE loci are identified\, it’s often important to know which cell type is harboring these activated TEs\, and whether certain cells are more vulnerable to TE activity than others. Integrating TE expression analysis into single-cell genomics workflows is crucial to understanding how these elements contribute to human disease. I will present recent results from my lab that tackle these issues in the context of neurodegeneration\, where elevated transposons are thought to contribute to neurotoxicity\, and may also contribute to neuroinflammation.  \n\n\n\nBiography\n\n\n\n\n\n\n\nThe Gale Hammell lab uses a combination of computational and experimental methods to understand how gene regulatory networks are perturbed in human disease. This includes an emphasis on developing novel tools for the statistical analysis of high-throughput data\, developing novel algorithms for modeling the flow of signals through genetic pathways\, and importantly\, testing these models using the tools of molecular genetics. One particular focus of the M. Hammell lab is to apply these novel statistical analysis methods to better understand how transposable elements are normally controlled. Mounting evidence has implicated transposon activity in a host of human diseases\, with particular evidence for activation in several neurodegenerative diseases\, including Amyotrophic lateral sclerosis (ALS)\, Fronto-Temporal Dementia (FTD)\, and Alzheimer’s Disease (AD). By combining the power of systems-level\, high-throughput data analysis with patient-derived ALS\, FTD\, and AD tissue samples\, the lab aims to better understand how these viral-like sequences contribute to cell death and disease. \n\n\n\n\n\n\n\nHost: Louella Vasquez\, NBIS Lund (louella.vasquez@scilifelab.se) \n\n\n\nDate: October 21\, 14:30 – 15:15 CET online on YouTube \n\n\n\nBroadcast link (live event): SBW YouTube channelThe talk will also be available afterwards on the SciLifeLab YouTube channel.More information about the Swedish Bioinformatics Workshop here.
URL:https://www.scilifelab.se/event/big-talks-transposon-genomics-from-single-loci-to-single-cells/
CATEGORIES:Event
ORGANIZER;CN="Swedish Bioinformatics Workshop":MAILTO:louella.vasquez@scilifelab.se
LOCATION:https://www.scilifelab.se/event/big-talks-transposon-genomics-from-single-loci-to-single-cells/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211021T170000
DTEND;TZID=Europe/Stockholm:20211021T173000
DTSTAMP:20260404T003922
CREATED:20210928T135950Z
LAST-MODIFIED:20211005T094033Z
UID:10000457-1634835600-1634837400@www.scilifelab.se
SUMMARY:Clinical Talks: Writing the Future
DESCRIPTION:Writing the Future\n\n\n\nOn October 21\, Dr. Emily Leproust will talk about her mission with co-founding Twist Bioscience\, and how their revolutionary oligosynthesis plattform is writing the future with DNA.  \n\n\n\nTwist Bioscience’s innovative silicon-based DNA Synthesis Platform is empowering our customers to realise their research goals faster. Twist offers DNA synthesis at an unmatched scale and price point\, without compromising on precision or quality. Here we discuss how DNA synthesis at scale can make traditional molecular biology approaches redundant in labs working with plasmid vectors; can power massive\, explicit diversity in CRISPR and antibody variant libraries; and can underpin NGS Target Enrichment Solutions with exceptional performance and unmatched speed in customisation. We’ll look at how these tools are helping drive innovation in a variety of research and application areas including cancer research\, drug discovery\, infectious disease and even data storage. \n\n\n\nAs an early pioneer in the high-throughput synthesis and sequencing of DNA\, Dr. Leproust is disrupting markets to enable the exponential growth of DNA-based applications including chemicals/materials\, diagnostics\, therapeutics\, food and digital data storage. In 2020\, BIO presented her with the Rosalind Franklin Award for Leadership. Foreign Policy named her one of their 100 Leading Global Thinkers and Fast Company named her one of the Most Creative People in Business. Prior to Twist Bioscience\, she held escalating positions at Agilent Technologies where she architected the successful SureSelect product line that lowered the cost of sequencing and elucidated mechanisms responsible for dozens of Mendelian diseases. She also developed the Oligo Library Synthesis technology\, where she initiated and led product and business development activities for the team. Dr. Leproust designed and developed multiple commercial synthesis platforms to streamline microarray manufacturing and fabrication. She serves on the Board of Directors of CM Life Sciences and is a co-founder of Petri\, an accelerator for start-ups at the forefront of engineering and biology. Dr. Leproust has published over 30 peer-reviewed papers – many on applications of synthetic DNA\, and is the author of numerous patents. She earned her Ph.D. in Organic Chemistry from University of Houston and her M.Sc. in Industrial Chemistry from the Lyon School of Industrial Chemistry. \n\n\n\nregistration\n\n\n\n\n\n\n\nSeason 5\, will be held September until December 2021 with 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\nAfter 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\nRead more
URL:https://www.scilifelab.se/event/clinical-talks-writing-the-future/
LOCATION:Online event via Zoom
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:20211025T080000
DTEND;TZID=Europe/Stockholm:20211029T170000
DTSTAMP:20260404T003922
CREATED:20210524T095145Z
LAST-MODIFIED:20211027T085846Z
UID:10000391-1635148800-1635526800@www.scilifelab.se
SUMMARY:Epigenomics Data Analysis: from Bulk to Single Cell (ONLINE)
DESCRIPTION:National workshop open for PhD students\, postdocs\, researchers and other employees within Swedish academia. This course is run by the National Bioinformatics Infrastructure Sweden (NBIS) \n\n\n\n \n\n\n\n\nCourse website\n\n\n\nApplication\n\n\n\n\nImportant dates\n\n\n\nApplication opens:  nowApplication closes: 2021-10-10Confirmation to accepted students:  2021-10-14 \n\n\n\nResponsible teachers\n\n\n\nAgata Smialowska\, Olga Dethlefsen\, Jakub WestholmPlease contact edu.epigenomics@nbis.se for course specific questions. \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 2000 SEK.  \n\n\n\n*Please note that NBIS cannot invoice individuals. \n\n\n\nWorkshop content\n\n\n\nThis workshop aims to introduce the best practice bioinformatics methods for processing\, analyses and integration of epigenomics and functional genomics data. \n\n\n\nTopics covered include\n\n\n\nData processing and analyses for differential methylation with Illumina EPIC arrays and Bisulfite-seq;ChIP-seq and ATAC-seq: peak calling\, peak independent/dependent quality metrics\, differential binding and differential accessibility analysis; motif enrichment;Functional analysis\, including finding nearest genes and custom features\, over-represented GO terms and Reactome pathways;Advanced ChIP methods: CUT&RUN\, CUT&Tag\, use of spike-ins in ChIP-seq;Integrative visualisations of epigenomics datasets;Introduction to nf-core pipelines for processing and analysis of epi- and functional genomics data.Basic multi-omics exploration and integration;Introduction to analysis of single cell functional genomics data (scATAC-seq). \n\n\n\nEntry requirements\n\n\n\nRequired for being able to follow the workshop and complete the computer exercises: \n\n\n\nBYOL\, bring your own laptop with R and RStudio installed;Basic knowledge in Linux;Basic programming experience\, preferably in R.\n\n\n\nDesirable \n\n\n\nExperience working on the SNIC center Uppmax or another HPC. We encourage participants to run the linked Uppmax tutorial before the workshop;Previous experience with NGS data analyses;Completing NBIS workshops “Introduction to Bioinformatics using NGS data” and “R Programming Foundations for Life Scientists” or equivalent.\n\n\n\nDue to limited capacity the workshop can accommodate maximum of 25 participants. If we receive more applications\, participants will be selected based on several criteria. Selection criteria include correct entry requirements\, motivation to attend the workshop as well as gender and geographical balance. \n\n\n\nPlease note that NBIS training events do not provide any formal university credits. \n\n\n\nThe 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 course application\, whether the course is valid for formal credits or not.
URL:https://www.scilifelab.se/event/epigenomics-data-analysis-from-bulk-to-single-cell-online/
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
LOCATION:
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211026T110000
DTEND;TZID=Europe/Stockholm:20211026T115000
DTSTAMP:20260404T003922
CREATED:20211014T073033Z
LAST-MODIFIED:20211110T152453Z
UID:10000463-1635246000-1635249000@www.scilifelab.se
SUMMARY:Uppsala PhD&Postdoc seminars: Simone Fouché & Jana Immenschuh
DESCRIPTION:Welcome to the very first SciLifeLab Uppsala PhD&Postdoc seminars!We are very happy to host exciting talks by PhD students and Postdocs from a great variety of fields within SciLifeLab. \n\n\n\nThe seminars will take place every Tuesday from 11:00 to 11:50 \n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\nFor this very first occasion the seminars will be:\n\n\n\nTowards unravelling the mystery of germline-restricted chromosomesSimone Fouché\, Postdoc at the Suh Group\, Dept. of Organismal Biology – Systematic BiologyMapping and characterization of aromatase gene expression in the male and female young adult rat brainJana Immenschuh\, PhD student at the Neuropsychopharmacology Group\, Dept. of Neuroscience \n\n\n\nAbstracts\n\n\n\nTitle: Towards unravelling the mystery of germline-restricted chromosomes \n\n\n\nSummary:Not all cells in eukaryotic organisms contain the same genome\, but rather programmed DNA elimination occurs extensively across the Tree of Life\, whereby fragments of the genome or entire chromosomes are removed during germline-soma differentiation. In zebra finch\, a massive chromosome\, the germline-restricted chromosome (GRC) is present in the germline and absent in the soma. Cytogenetic data suggest GRCs are widely distributed among songbirds. Despite the wide occurrence of programmed DNA elimination\, the mechanisms of programmed DNA elimination\, the function and the evolutionary significance of the phenomenon\, are poorly understood. At present we are working on a reference assembly for the GRC in zebra finch in order to shed some light on the emergence and evolution of this enigmatic chromosome. Specifically we would like show whether: 1. Whether the GRC is always maternally inherited? 2. What is the population level variation and are some regions maintained by selection? 3. Which regions of the genome are more likely to be copied to the GRC\, regions with functions related to development or highly recombining regions of regular chromosomes? \n\n\n\nTitle: Mapping and characterization of aromatase gene expression in the male and female young adult rat brain \n\n\n\nSummary:The enzyme aromatase (Cyp19a1 gene) catalyzes the biosynthesis of estrogens from androgens. Besides several peripheral tissues\, it is expressed in specific brain regions that are of relevance to emotional and cognitive functions in mammalian species\, including rats and humans. Of interest\, aromatase seems to be involved in non-reproductive functions in the brain\, such as regulation of neurogenesis\, synaptic transmission and neuroprotection and might be expressed in a sex-dependent manner. Investigation of its expression throughout the brain has shown to be outdated and imprecise\, and is lacking the identification of sub regions with known sexual dimorphisms or functions related to sex differences in both males and females. Additionally\, little is known about the identity of the neurons expressing aromatase. The present study sought to map the expression pattern of Cyp19a1 throughout the brain of young adult rats of both sexes and elucidate sex differences\, as well as characterize in an exploratory fashion the cell types expressing this gene. The findings will advance the knowledge on aromatase and its role in the brain. As gonadal hormones affect the brain as well as mental health in a profound manner\, this study might shed light on some of the underlying molecular underpinnings.
URL:https://www.scilifelab.se/event/scilifelab-uppsala-phdpostdoc-seminars-simone-fouche-jana-immenschuh/
LOCATION:Online event via Zoom
CATEGORIES:Community
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211026T130000
DTEND;TZID=Europe/Stockholm:20211026T160000
DTSTAMP:20260404T003922
CREATED:20210928T124945Z
LAST-MODIFIED:20211018T141735Z
UID:10000456-1635253200-1635264000@www.scilifelab.se
SUMMARY:DNP inauguration ceremony
DESCRIPTION:We are very happy to announce the unique collaboration between AstraZeneca and University of Gothenburg on advanced NMR technology\, manifested in the inauguration ceremony of our new DNP-NMR instrument! \n\n\n\nWelcome to the DNP inauguration ceremony to celebrate the DNP-NMR instrument investment at the Swedish NMR Centre\, University of Gothenburg! \n\n\n\nThe ceremony will take place between 13.00 – 16.00 on October 26 in lecture hall Birgit Thilander\, Medicinaregatan 3\, Gothenburg. \n\n\n\nInvited guest speaker professor Lyndon Emsley from EPFL Lausanne will close the ceremony by giving a lecture between 15.00 – 16.00. \n\n\n\nPlease respond before October 16. \n\n\n\nregistration\n\n\n\nProgram\n\n\n\n13.00Welcome remarksWelcome – Göran Karlsson\, Director Swedish NMR Centre\, and Staffan Schantz\, APS AstraZenecaGothenburg ecosystem view – Matti Ahlqvist\, AstraZeneca Gothenburg Executive Site DirectorPharmaceutical development – Piet van den Oetelaar\, Head OPD/AstraZenecaUniversity Research Infrastructures – Göran Hilmersson\, Dean\, The Faculty of Science\, University of Gothenburg.13.45Tour to the new DNP-NMR instrumentArthur Pinon\, SNC14.30Light snacks & refreshments15.00Structure Activity Relations in Materials from DNP-NMRLyndon Emsley\, EPFL Lausanne16.00Closing\n\n\n\n \n\n\n\nOn behalf of the inauguration ceremony team\, \n\n\n\nStaffan Schantz\, AstraZeneca\, Göran Karlsson\, University of Gothenburg\, Ulrika Brath\, University of Gothenburg Nina Berg\, AstraZeneca 
URL:https://www.scilifelab.se/event/dnp-inauguration-ceremony/
LOCATION:Birgit Thilander Lecture Hall\, Medicinaregatan 3\, Göteborg
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2021/09/image001.jpg
ORGANIZER;CN="Swedish NMR Centre":MAILTO:info@nmr.gu.se
END:VEVENT
END:VCALENDAR