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:20211001T090000
DTEND;TZID=Europe/Stockholm:20211001T110000
DTSTAMP:20260405T145806
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:20211004T151500
DTEND;TZID=Europe/Stockholm:20211004T161500
DTSTAMP:20260405T145806
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:20260405T145806
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:20211007T110000
DTEND;TZID=Europe/Stockholm:20211007T120000
DTSTAMP:20260405T145806
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:20211011T151500
DTEND;TZID=Europe/Stockholm:20211011T163000
DTSTAMP:20260405T145806
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:20211015T090000
DTEND;TZID=Europe/Stockholm:20211015T093000
DTSTAMP:20260405T145806
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:20260405T145806
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:20211018T151500
DTEND;TZID=Europe/Stockholm:20211018T161500
DTSTAMP:20260405T145806
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:20260405T145806
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:20211021T143000
DTEND;TZID=Europe/Stockholm:20211021T151500
DTSTAMP:20260405T145806
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:20260405T145806
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:20211026T130000
DTEND;TZID=Europe/Stockholm:20211026T160000
DTSTAMP:20260405T145806
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
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211027T080000
DTEND;TZID=Europe/Stockholm:20211029T170000
DTSTAMP:20260405T145806
CREATED:20210906T122129Z
LAST-MODIFIED:20210906T122916Z
UID:10000439-1635321600-1635526800@www.scilifelab.se
SUMMARY:nf-core hackathon
DESCRIPTION:Mark your calendars to join us for the October 2021 nf-core hackathon! \n\n\n\nWith the recent release of the new nf-core template for Nextflow’s DSL2\, in this event we will be going full-steam ahead with conversion of nf-core pipelines from DSL1 to DSL2. The main objectives of this hackathon will be adding nf-core modules and rewriting existing pipelines to the new Nextflow language format. \n\n\n\nFor Nextflow novices\, we will be looking for help in writing Nextflow modules of commonly used bioinformatics tools. \n\n\n\nFor more experienced developers we hope for contributions to writing subworkflows and pipeline code. \n\n\n\nIn the spirit of collaboration and knowledge sharing\, we plan to pair up both novices and experienced developers in pair programming to help get newcomers up to speed on writing and contributing nf-core modules through a pair-programming session for a limited number of participants. Make sure to sign up by September 27\, 2021 to participate in pair-programming! \n\n\n\nThis event is entirely virtual and we are attempting to support people in all timezones. Do get in touch with us if you’d like to help us out! \n\n\n\nRead more and sign up
URL:https://www.scilifelab.se/event/nf-core-hackathon/
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2021/09/nf-core-logo.png
LOCATION:https://www.scilifelab.se/event/nf-core-hackathon/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211027T151500
DTEND;TZID=Europe/Stockholm:20211027T164500
DTSTAMP:20260405T145806
CREATED:20211011T121542Z
LAST-MODIFIED:20211012T094117Z
UID:10000462-1635347700-1635353100@www.scilifelab.se
SUMMARY:SciLifeLab COVID-19 seminars: Aaron Bivins and Anna Székely
DESCRIPTION:The third seminar in this series starts with Aaron Bivins\, Post-Doctoral Research Associate\, Department of Civil & Environmental Engineering & Earth Sciences\, University of Notre Dame\, who will talk about Wastewater surveillance for COVID-19 in a vaccinated world.  \n\n\n\nAnna Székely\, Associate Professor\, Researcher at the Department of Aquatic Sciences and Assessment; Section for Ecology and Biodiversity\, Swedish University of Agricultural Sciences (SLU)\, then continues the seminar by talking about Experiences and challenges of Swedish wastewater measurements: from research project to national monitoring \n\n\n\nHost:  Zeynep Cetecioglu Gurol\, KTH \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\n\n\n\n\nREGISTRATION\n\n\n\n\n\n\n\n\n\nBIOS and ABSTRACTS\n\n\n\n\n\n\n\n\n\n\n\n\nProgram\n\n\n\n15:15Wastewater surveillance for COVID-19 in a vaccinated world Aaron Bivins\, Post-Doctoral Research Associate\, University of Notre Dame  16:00Experiences and challenges of Swedish wastewater measurements: from research project to national monitoring Anna Székely\, Associate Professor\, Researcher\, SLU
URL:https://www.scilifelab.se/event/scilifelab-covid-19-seminars-aaron-bivins-and-anna-szekely/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211028T130000
DTEND;TZID=Europe/Stockholm:20211028T140000
DTSTAMP:20260405T145806
CREATED:20210930T150158Z
LAST-MODIFIED:20211014T151926Z
UID:10000459-1635426000-1635429600@www.scilifelab.se
SUMMARY:[Drug Discovery Seminars] Targeting the oncogenic TGFβ signaling pathway in cancer to inhibit invasion and metastasis
DESCRIPTION:Maréne Landström \n\n\n\nOctober 28\, 13:00-14:00 \n\n\n\n \n\n\n\nregistration\n\n\n\nWelcome to join this Drug Discovery Seminar hosted by the Drug Discovery and Development Platform. \n\n\n\nPresenter: \n\n\n\nProfessor Maréne Landström\, M.D.\, PhD \n\n\n\nDept. Medical Biosciences\, Umeå University \n\n\n\nMaréne Landström is a professor in Pathology at Department of Medical Biosciences\, Umeå University\, Sweden. She has made her postdoctoral training at the Ludwig Institute of Cancer Research\, Uppsala Branch and have also been a group leader at Department of Immunology\, Genetics and Pathology\, Uppsala University before taking on her current position. \n\n\n\nAbstract: \n\n\n\nTransforming growth factor beta (TGFb) is frequently overexpressed in several forms of cancer including prostate cancer and this has been shown to correlate with poor prognosis. TGFb is transducing its canonical and non-canonical signals via its transmembrane TGFb Type II and Type I receptors (TbRII/TbRI) which are serine-threonine kinases. We have found that the TbRI undergoes proteolytic cleavage in cancer cells in a manner dependent on the ubiquitin-ligase tumor necrosis factor (TNF) receptor-associated factor 6 (TRAF6). The intracellular domain of TbRI (TbRI-ICD) is released from the cell membrane\, soluble and is transported to the nucleus in some specific forms of cancer to promote expression of genes causing invasion and metastatic growth. In collaboration with SciLifeLab DDD we have generated potential therapeutic antibodies to target this pathway which we are investigating the function of\, in our established preclinical models for prostate cancer.
URL:https://www.scilifelab.se/event/drug-discovery-seminars-targeting-the-oncogenic-tgf%ce%b2-signaling-pathway-in-cancer-to-inhibit-invasion-and-metastasis/
LOCATION:Online event via Zoom
CATEGORIES:Event
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20211029T090000
DTEND;TZID=Europe/Stockholm:20211029T093000
DTSTAMP:20260405T145806
CREATED:20211014T115257Z
LAST-MODIFIED:20211028T115510Z
UID:10000464-1635498000-1635499800@www.scilifelab.se
SUMMARY:Clinical Talks: Blood-based methods for predicting the day of labor
DESCRIPTION:On October 29\, we will host a dual presentation with Dr. Ina Stelzer and Associate Professor Brice Gaudillière. At the Stanford School of Medicine Clinical Gaudillière laboratory\, Ina and Brice have developed a groundbreaking multi-omics approach to track the maternal metabolome\, proteome and immunome to predict exact labor onset. Estimating the time of delivery is of high clinical importance to minimize pre- and post-term deviations causing complications and suffering with ultimately more streamlined use of medical resources for a sustainable future. \n\n\n\n \n\n\n\nRead more about clinical talks\n\n\n\n\n\n\n\nIna is a molecular biologist and immunologist with an extensive background in pregnancy immunology. She obtained her PhD in Immunology 2017 from the University Medical Center Hamburg-Eppendorf (part of the University of Hamburg). Her work then focused on the immunology of pregnancy and feto-maternal immune crosstalk with a focus on fetal origin of disease development later in life. Ina is currently pursuing her postdoctoral research at Stanford University in the Gaudillière laboratory. Building on her expertise in preclinical (mouse) models of pregnancy and translational systems immunology\, her research leverages state-of-the-art single cell proteomic techniques (suspension and imaging mass cytometry) to study feto-maternal immune adaptations in healthy and pathological pregnancies with the goal to improving the health of mothers and their children. Her current K99/R00-funded work investigates the neuro-immune axis in normal pregnancy and the pathogenesis of pregnancy complications. While at Stanford during 2021\, Ina also recently completed the prestigious Stanford University Graduate School of Business organized Stanford Ignite certificate program. \n\n\n\n\n\n\n\nAssociate Professor Brice Gaudillière initially studied Engineering at Ecole Polytechnique in Paris before completing an MD-PhD degree from the Harvard-MIT Health Sciences and Technology program in 2009. During his postdoctoral fellowship at Stanford University in Dr. Garry Nolan’s laboratory\, he developed and standardized a pipeline to implement CyTOF in clinical studies. Brice is also a Board Certified Anesthesiologist and works clinically in the operating room 25% of his time. \n\n\n\nGaudilliere’s research group combines high parameter mass cytometry (suspension and imaging mass cytometry) with other proteomics approaches to study how the human immune system responds and adapts to physiological or pathological stressors. Ongoing studies in the Gaudilliere lab focus on several clinical scenarios including\, 1) surgical recovery and traumatic injury (NIGMS R35\, Stanford ITI\, Anesthesia department FIDL\, 2) pregnancy and preterm birth (Doris Duke Foundation\, Stanford Prematurity Center grants from the Bill and Melinda Gates and the March of Dimes Foundation\, 3) Host immune response to COVID-19 infection (FAST grant)\, 4) neurocognitive recovery after stroke (PHIND grant). \n\n\n\nregister here
URL:https://www.scilifelab.se/event/blood-based-methods-for-predicting-the-day-of-labor/
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
END:VCALENDAR