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BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20251110T090000
DTEND;TZID=Europe/Stockholm:20251110T170000
DTSTAMP:20260406T165735
CREATED:20250528T133817Z
LAST-MODIFIED:20251107T140700Z
UID:10001560-1762765200-1762794000@www.scilifelab.se
SUMMARY:SciLifeLab Epigenomics Symposium
DESCRIPTION:Epigenomics is a cornerstone of modern genomics\, providing crucial insights into gene regulation and cellular function. The study of epigenetic modifications\, such as DNA methylation\, histone modifications\, and non-coding RNA expression\, has revolutionized our understanding of gene activity across diverse biological systems. With advancements in sequencing technologies\, researchers can now investigate these modifications at a genome-wide level\, both in bulk tissues and at single-cell resolution. When integrated with genomic and transcriptomic data in a multimodal framework\, epigenomics offers new perspectives on gene expression regulation with broad applications in ecology\, developmental biology\, and human health\, including cancer and other diseases. \n\n\n\nWelcome to a full-day symposium with presentations from leading experts in the epigenomics field. \n\n\n\nThis event is organized in collaboration with NGI\, Clinical Genomics and NBIS. \n\n\n\nRegistration\n\n\n\nThe registration is closed. \n\n\n\n\nExtra! Hands-on Course in Epigenomics\n\n\n\nFollowing the symposium\, a four-day hands-on course will be held November 11- 14. The course combines laboratory work\, theory\, and bioinformatics training\, focused on the generation and analysis of DNA methylation data. Please visit the course page for more information and registration. \n\n\n\nRead more\n\n\n\n\nConfirmed speakers SciLifeLab Epigenomics Symposium\n\n\n\n\nPhilipp Euskirchen\, Charité – Universitätsmedizin Berlin\n\n\n\nMartí Duran-Ferrer\, FRCB-IDIBAPS\, Barcelona\n\n\n\nReka Toth\, Luxembourg Institute of Health\n\n\n\nMaja Jagodic\, Karolinska Institutet\n\n\n\nAngelica Maria Delgado-Vega\, Karolinska Institutet\n\n\n\nSofie Degerman\, Umeå University\n\n\n\nColum Walsh\, Linköping University\n\n\n\nLeif Andersson\, Uppsala University\n\n\n\nCarl-Johan Rubin\, Uppsala University\n\n\n\nAmanda Raine\, Uppsala University\n\n\n\nKatarzyna Dziasek\, SLU\n\n\n\n\nProgram\n\n\n\nSciLifeLab Epigenomics Symposium Agenda_251107Download\n\n\n\nContact for questions\n\n\n\nUlrika Liljedahl\, Ulrika.Liljedahl@medsci.uu.se \n\n\n\nOrganizers\n\n\n\nSciLifeLab Genomics NGI\, Jessica Nordlund https://www.scilifelab.se/units/ngi/ \n\n\n\nSciLifeLab Clinical Genomics\, Colum Walsh https://www.scilifelab.se/units/clinical-genomics/ \n\n\n\nNational Bioinformatics Infrastructure\, Louella Vasquez https://www.scilifelab.se/units/nbis/ \n\n\n\n\n\n\n\nWith the kind support from:
URL:https://www.scilifelab.se/event/scilifelab-epigenomics-symposium/
LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden
CATEGORIES:Event
ORGANIZER;CN="National Genomics Infrastructure (NGI)":MAILTO:support@ngisweden.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250923T100000
DTEND;TZID=Europe/Stockholm:20250923T123000
DTSTAMP:20260406T165735
CREATED:20250901T144230Z
LAST-MODIFIED:20250902T062902Z
UID:10001598-1758621600-1758630600@www.scilifelab.se
SUMMARY:Illumina Multiomics Day - Uppsala
DESCRIPTION:The future of integrated biology is here! Illumina and SciLifeLab National Genomics Infrastructure – NGI are hosting two Multiomics Day events in September. \n\n\n\nRegister\n\n\n\nJoin us for an engaging seminar to explore how Next-Generation Sequencing (NGS) is pushing the boundaries of biological research. We’ll dive into the latest applications\, from NGS-based proteomics and epigenomics to single-cell and spatial transcriptomics. \n\n\n\nYou’ll get a chance to learn about groundbreaking innovations like Constellation Mapped Read Technology and Illumina’s 5-base solution\, and hear real-world insights from Illumina and NGI experts.This is the perfect event for researchers\, lab managers\, and bioinformaticians ready to unlock deeper biological insights. Join the same fantastic Illumina and NGI speaker lineup at the location that suits you best! \n\n\n\n121101-Illumina-MOx-day-Uppsala-flyer-final
URL:https://www.scilifelab.se/event/illumina-multiomics-day-uppsala/
LOCATION:BMC Trippelrummet\, Husargatan 3\, entrance C11\, Uppsala\, Sweden
CATEGORIES:Event
ORGANIZER;CN="National Genomics Infrastructure (NGI)":MAILTO:support@ngisweden.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250922T100000
DTEND;TZID=Europe/Stockholm:20250922T123000
DTSTAMP:20260406T165735
CREATED:20250901T143900Z
LAST-MODIFIED:20250902T062839Z
UID:10001597-1758535200-1758544200@www.scilifelab.se
SUMMARY:Illumina Multiomics Day - Stockholm
DESCRIPTION:The future of integrated biology is here! Illumina and SciLifeLab National Genomics Infrastructure – NGI are hosting two Multiomics Day events in September. \n\n\n\nRegister\n\n\n\nJoin us for an engaging seminar to explore how Next-Generation Sequencing (NGS) is pushing the boundaries of biological research. We’ll dive into the latest applications\, from NGS-based proteomics and epigenomics to single-cell and spatial transcriptomics. \n\n\n\nYou’ll get a chance to learn about groundbreaking innovations like Constellation Mapped Read Technology and Illumina’s 5-base solution\, and hear real-world insights from Illumina and NGI experts.This is the perfect event for researchers\, lab managers\, and bioinformaticians ready to unlock deeper biological insights. Join the same fantastic Illumina and NGI speaker lineup at the location that suits you best! \n\n\n\n121101-Illumina-MOx-day-Stockholm-flyer-final (1)
URL:https://www.scilifelab.se/event/illumina-multiomics-day-stockholm/
LOCATION:Air&Fire\, SciLifeLab Stockholm\, Tomtebodavägen 23A\, Solna\, Sweden
CATEGORIES:Event
ORGANIZER;CN="National Genomics Infrastructure (NGI)":MAILTO:support@ngisweden.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20250324T080000
DTEND;TZID=Europe/Stockholm:20250328T170000
DTSTAMP:20260406T165735
CREATED:20250110T131412Z
LAST-MODIFIED:20250304T085100Z
UID:10001452-1742803200-1743181200@www.scilifelab.se
SUMMARY:Introduction to bioinformatics using NGS data
DESCRIPTION:National workshop for PhD students\, postdocs\, researchers\, and other employees within Swedish academia\, introducing the analysis of next generation sequencing data. \n\n\n\nResponsible teachers: Malin Larsson\, Martin Dahlö\, Roy Francis \n\n\n\nContact information: edu.intro-ngs@nbis.se   \n\n\n\nImportant dates\n\n\n\nApplication opens: 13-Jan-2025 \n\n\n\nApplication closes: 23-Feb-2025 \n\n\n\nConfirmation to accepted students: Week 9\, 2025 \n\n\n\nCourse fee\n\n\n\nThis online training event is subsidized by academic grants and thereby free of charge for academic participants. The fee for non-academic participants is 12 000 SEK.   \n\n\n\nNon-show fee: If you accept a position at the workshop but fail to attend without a valid reason (sickness or urgent family matter)\, you will be liable for a now-show fee  of 3000 SEK (for academic participants) or the full fee (for non-academic participants).  \n\n\n\nPlease note that NBIS cannot invoice individuals. \n\n\n\nApply here\n\n\n\nCourse description\n\n\n\nThis intense one-week workshop provides an introduction to the analysis of next generation sequencing data. Lectures on the theory of concepts will be paired with practical computational exercises in the Linux environment. The practical exercises will focus on data from the Illumina platform\, but we will discuss other sequencing platforms and the advantages and challenges to using their data during the lectures.  \n\n\n\nCourse content\n\n\n\nBriefly\, the workshop covers the followings major topics: \n\n\n\n●      Working on the UNIX/LINUX command line \n\n\n\n●      Bioinformatic/NGS data formats and QC \n\n\n\n●      DNA variant calling workflow essentials \n\n\n\n●      RNA sequence analysis workflow essentials \n\n\n\nLearning outcomes\n\n\n\nAfter this workshop you should be able to: \n\n\n\n●      Describe the basic principles of next generation sequencing. \n\n\n\n●      Use the Linux command line interface to manage simple file processing operations\, and organise directory structures. \n\n\n\n●      Connect to and work on a remote high performance compute cluster. \n\n\n\n●      Apply programs in Linux for analysis of NGS data. \n\n\n\n●      Summarise the applications of current NGS technologies\, including the weakness and strengths of the approaches and when it is appropriate to use which one of them. \n\n\n\n●      Explain common NGS file formats. \n\n\n\n●      Interpret quality control of NGS reads. \n\n\n\n●      Explain the steps involved in variant calling using whole genome sequencing data. \n\n\n\n●      Independently perform a basic variant calling workflow on example data. \n\n\n\n●      Demonstrate hands-on experience with handling raw RNA sequencing data\, QC and quantification of gene expression. \n\n\n\n●      Explain the steps involved in differential gene expression using RNA seq data. \n\n\n\nEntry requirements\n\n\n\nTo be able to follow the workshop you need to: \n\n\n\nBYOL\, bring your own laptop configured according to precourse instructions. \n\n\n\nHave a background in genetics\, cell biology\, biomedicine\, biochemistry\, bioinformatics or comparable. \n\n\n\nTo get the maximum benefit from the workshop you should: \n\n\n\nHave a research project where you are currently using or are planning to use next generation sequencing. \n\n\n\nSelection criteria\n\n\n\nIf we receive more applications than we have seats in the course\, 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. Priority is given to PhD scholars followed by other researchers\, and we will prioritise applications  from Swedish academia.
URL:https://www.scilifelab.se/event/introduction-to-bioinformatics-using-ngs-data-5/
LOCATION:Online event via Zoom
CATEGORIES:Course
ORGANIZER;CN="NBIS - National Bioinformatics Infrastructure Sweden":MAILTO:education@nbis.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20241021T090000
DTEND;TZID=Europe/Stockholm:20241023T170000
DTSTAMP:20260406T165735
CREATED:20240327T140400Z
LAST-MODIFIED:20240327T140521Z
UID:10001220-1729501200-1729702800@www.scilifelab.se
SUMMARY:Long-Read Sequencing Uppsala Meeting 2024
DESCRIPTION:In recent years\, long-read DNA sequencing has replaced short-read technologies as the gold standard solution for a wide range of genomics applications. In addition to producing high-quality de novo genome assembly\, long-read technologies can be used to study complex structural variation\, full-length RNA isoforms\, detection of epigenetic signals\, and much more. The adaptation of long-read sequencing is sweeping through several areas of the life sciences\, including agricultural\, environmental\, and medical research. \n\n\n\nJoin us in Uppsala for a three-day international event to catch up with the latest developments in long-read sequencing technologies and their applications\, get inspired by peers presenting their research\, and enjoy discussions with leading experts and company representatives. \n\n\n\n\n\n\n\nRead more\n\n\n\n\n\n\n\nRegistration
URL:https://www.scilifelab.se/event/long-read-sequencing-uppsala-meeting-2024/
LOCATION:Universitetsaulan\, Biskopsgatan 3\, Uppsala\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/jpeg:https://www.scilifelab.se/wp-content/uploads/2024/02/C13089-scaled.jpg
ORGANIZER;CN="National Genomics Infrastructure (NGI)":MAILTO:support@ngisweden.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20231206T100000
DTEND;TZID=Europe/Stockholm:20231206T130000
DTSTAMP:20260406T165735
CREATED:20231120T114459Z
LAST-MODIFIED:20231120T114502Z
UID:10001036-1701856800-1701867600@www.scilifelab.se
SUMMARY:Introducing Molecular Pixelation - Spatial proteomics of single cells by Next Generation Sequencing
DESCRIPTION:We are pleased to invite you to our Spatial Proteomics Seminar organized together with SNP&SEQ Technology Platform/National Genomics Infrastructure (NGI). We will take you beyond the use of flow cytometry and focal microscopy into the intriguing and dynamic world of the cell-surface proteome of single cells through next-generation sequencing. \n\n\n\nFollowing the seminar\, we will serve sandwiches and refreshments. \n\n\n\nDate: Wednesday\, December 6\, 2023Time: 10:00 to 13:00 CETLocation: SciLifeLab Uppsala (Navet)Uppsala Biomedicinska CentrumHusargatan 3\, entrance C11\,752 37 Uppsala \n\n\n\nMolecular Pixelation\n\n\n\nBy simultaneously analyzing changes in the dynamic protein architecture of cellmembranes across 1000s of single cells\, a new chapter has unfolded. This allows us toassess how subtle alterations in the spatial orchestration of proteins impact the immunesystem\, disease outcomes\, and responses to treatment. \n\n\n\nAgenda\n\n\n\n10:00 – 10:05 WelcomeAnnaLotta Schiller\, Pixelgen10:05 – 10:35 Introducing Molecular PixelationSimon Fredriksson\, Pixelgen10:35 – 10:55 Mapping individual drug responses using Molecular PixelationJessica Nordlund\, SciLifeLab\, NGI\, UU10:55 – 11:05 Sequencing single cells at the SciLifeLab National Genomics InfrastructureHenrik Gezelius\, SciLifeLab\, NGI\, UU11:05 – 11:35 Panel discussion including Q&ASimon\, Jessica & Henrik11:35 – 13.00 Sandwiches & Cake \n\n\n\nThe seminar will be accessible in both in-person and virtual formats \n\n\n\nReserve Your Spot\n\n\n\nTo secure your place for the lunch seminar\, register on the link below\, specifying your attendance and lunch preferences. All participants must register including the speakers as well as both in person and virtual attendees \n\n\n\nRegister here
URL:https://www.scilifelab.se/event/introducing-molecular-pixelation-spatial-proteomics-of-single-cells-by-next-generation-sequencing/
LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden
CATEGORIES:Event
ORGANIZER;CN="National Genomics Infrastructure (NGI)":MAILTO:support@ngisweden.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20221031T080000
DTEND;TZID=Europe/Stockholm:20221102T170000
DTSTAMP:20260406T165735
CREATED:20220323T160943Z
LAST-MODIFIED:20220906T102510Z
UID:10000566-1667203200-1667408400@www.scilifelab.se
SUMMARY:Long-Read Sequencing Uppsala Meeting 2022
DESCRIPTION:In recent years\, long-read DNA sequencing has replaced short-read technologies as the gold standard solution for a wide range of genomics applications. In addition to producing high quality de novo genome assembly\, long-read technologies can be used to study complex structural variation\, full-length RNA isoforms\, detection of epigenetic signals\, and much more. The adaptation of long-read sequencing is sweeping through several areas of the life sciences including agricultural\, environmental\, and medical research.  \n\n\n\nJoin us in Uppsala for a three-day event to catch up with the latest developments in long-read sequencing technologies and their applications\, get inspired by peers presenting their research\, and enjoy discussions with leading experts and company representatives. \n\n\n\nRead more
URL:https://www.scilifelab.se/event/long-read-sequencing-uppsala-meeting-2022/
LOCATION:Universitetsaulan\, Biskopsgatan 3\, Uppsala\, Sweden
CATEGORIES:Event
ORGANIZER;CN="National Genomics Infrastructure (NGI)":MAILTO:support@ngisweden.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20220330T093000
DTEND;TZID=Europe/Stockholm:20220330T120000
DTSTAMP:20260406T165735
CREATED:20211215T171934Z
LAST-MODIFIED:20220324T163435Z
UID:10000501-1648632600-1648641600@www.scilifelab.se
SUMMARY:NGI and Nanopore; tech update seminar
DESCRIPTION:Note! The event was originally planned for January but was postponed. This is the new date! \n\n\n\nNational Genomics Infrastructure has now increased capacity for methylation calling\, direct RNA sequencing\, sequencing of ultra-long fragments to resolve structural variation. Do you want to hear more? We invite you to an event where you will be able to hear the latest tech updates from Oxford Nanopore Technologies as well as hearing from NGI and the following local and international users about their research using nanopore sequencing. \n\n\n\n \n\n\n\nThe event will be a hybrid event with the possibility to attend on-site in Trippelrummet\, Navet\, BMC\, Uppsala or via zoom. This event is free to attend\, but registration is required.  \n\n\n\nRegistration\n\n\n\nAGENDA\n\n\n\n09:30Welcome09:35Introduction to Oxford Nanopore SequencingJakob Ørtvig\, Oxford Nanopore Technologies09:50Nanopore sequencing at NGIAnna Petri\, National Genomics Infrastructure10:10Coffee break10:40Interrogating the effects of CRISPR-Cas9 genome editing by long-read sequencingIda Höijer\, National Genomics Infrastructure11:00Using ONT-sequencing to gain insight into genome structure and functionCarl-Johan Rubin\, Uppsala University11:20Developing an end-to-end solution to deliver long read whole genome sequencing for cancerMelanie Tanguy\, Genomics England11:40Q&A12:00End of day
URL:https://www.scilifelab.se/event/ngi-and-nanopore-tech-update-seminar/
LOCATION:Navet\, SciLifeLab Uppsala\, SciLifeLab Uppsala\, BMC C11\, Husargatan 3\, Uppsala\, 75237\, Sweden
CATEGORIES:Event
ATTACH;FMTTYPE=image/png:https://www.scilifelab.se/wp-content/uploads/2021/12/NGI_Nanopore_March-30_2022.png
ORGANIZER;CN="National Genomics Infrastructure (NGI)":MAILTO:support@ngisweden.se
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210526T100000
DTEND;TZID=Europe/Stockholm:20210526T120000
DTSTAMP:20260406T165735
CREATED:20210428T095940Z
LAST-MODIFIED:20210511T080725Z
UID:10000371-1622023200-1622030400@www.scilifelab.se
SUMMARY:NGI and NBIS webinar on de novo sequencing and analysis
DESCRIPTION:Welcome to a webinar on de novo sequencing and analysis\, a service that the National Genomics Infrastructure (NGI) and National Bioinformatics Infrastructure Sweden (NBIS) offers to its users. De novo\, which translates to “starting from the beginning”\, refers to the process of sequencing a novel genome from an organism where no previous reference sequence is available. \n\n\n\nThe de novo analysis strategy is divided into separate stages\, starting with (i) sequencing\, (ii) assembly\, and finally (iii) annotation.  \n\n\n\nDuring the sequencing stage\, short and/or long DNA/RNA reads are produced using several sequencing technologies\, such as Illumina\, PacBio and Nanopore. The obtained DNA reads are subsequently assembled into longer sequences\, called contigs during the assembly stage. The gaps between contigs can be linked by scaffolding using long read data and chromosome contact maps obtained by Hi-C.Assembled genomes are then annotated\, allowing for the structure and the function of the assembled sequences to be inferred. This includes protein-coding genes\, but also other features such as non-coding genes and regulatory elements. This webinar will focus on what one needs to consider while planning a de novo project. We are also proud to have Alexander Suh (Lecturer\, University of East Anglia and Uppsala University) describing one of his many projects on how to solve sex-specific and tissue-specific genome differences of birds by using de novo tools facilitated by NGI and NBIS.  \n\n\n\nAgenda\n\n\n\n10:00De novo analysis that NGI can offer youOlga Vinnere Pettersson\, PhD\, Project coordinator NGI10:20PacBio/Nanopore in de novo realmIgnas Bunikis\, PhD\, Bioinformatician NGI10:35Using Hi-C methods to generate chromosome-scaled assembly scaffoldsRemi-Andre Olsen\, PhD\, Bioinformatician NGI10:50The assembly and annotation support available at the SciLifeLab bioinformatics platform NBISHenrik Lantz\, PhD\, Joint Head of Unit Support and Infrastructure NBIS11:05Diving into the depths of sex-specific and tissue-specific genome differences of birdsAlexander Suh\, PhD\, Lecturer\, University of East Anglia and Uppsala University11:30Q&A session
URL:https://www.scilifelab.se/event/ngi-and-nbis-webinar-on-de-novo-sequencing-and-analysis/
CATEGORIES:Event
ORGANIZER;CN="National Genomics Infrastructure (NGI)":MAILTO:support@ngisweden.se
LOCATION:https://www.scilifelab.se/event/ngi-and-nbis-webinar-on-de-novo-sequencing-and-analysis/
END:VEVENT
BEGIN:VEVENT
DTSTART;TZID=Europe/Stockholm:20210420T100000
DTEND;TZID=Europe/Stockholm:20210420T120000
DTSTAMP:20260406T165735
CREATED:20210414T081421Z
LAST-MODIFIED:20210414T083002Z
UID:10000356-1618912800-1618920000@www.scilifelab.se
SUMMARY:NGI webinar on Spatial Transcriptomics 10X Visium
DESCRIPTION:The National Genomics Infrastructure (NGI) at SciLifeLab invites you to participate in a webinar on the Spatial Transcriptomics 10X Visium technology.  \n\n\n\nSpatially resolved transcriptomics\, recently pronounced Method of the Year by Nature Methods\, has undoubtedly changed the way we understand complex tissues.  With the recent launch of the 10X Genomics Visium assay\, we can now offer spatially resolved transcriptome-wide analysis in tissue sections\, right here at NGI!  \n\n\n\nThis webinar will serve as a guide through how the technology has evolved\, how the protocol is run\, and how spatial transcriptomics data can be analysed.  \n\n\n\nOur line-up of talks include speakers from NGI and the Spatial Research lab\, as well as two keynote speakers; Dr. Alessondra Speidel\, who will present how Spatial Transcriptomics has helped her understand how wound healing responds to different hydrogel materials\, and Dr. James Chell\, a Senior Scientist at 10X Genomics who will update us on the Visium spatial platform and its FFPE application.  \n\n\n\nInterested? Find out more how NGI can support projects that can benefit from 10X Genomics Visium.
URL:https://www.scilifelab.se/event/ngi-webinar-on-spatial-transcriptomics-10x-visium/
CATEGORIES:Event
ORGANIZER;CN="National Genomics Infrastructure (NGI)":MAILTO:support@ngisweden.se
LOCATION:https://www.scilifelab.se/event/ngi-webinar-on-spatial-transcriptomics-10x-visium/
END:VEVENT
END:VCALENDAR