Seminar Colour Guide:              
Company Representative
Friday, 21 September 2012, 11:00Add to calendarArchitectural dynamics of actin and myosin II in crawling cells revealed by superresolution imagingJennifer Lippincott-Schwartz, NICHD, NIH, Cell Biology and Metabolism Program, Bethesda, NOT SPECIFIEDHost: Peter LenártLarge Operon, EMBL Heidelberg
Tags: Cell Biology
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Tuesday, 25 September 2012, 11:10Add to calendarRaman Spectroscopy - a novel method for cell detection and classification of cell viability or differentiation states Rainer PepperkokKarin Schütze , CellTool - cofounder and CEO, NOT SPECIFIEDHost: Rainer PepperkokSmall Operon, EMBL Heidelberg
Tags: Biophysics, Cell Biology, Chemistry and Chemical Biology
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Tuesday, 25 September 2012, 11:40Add to calendarRaman Spectroscopy of biological samples – sample preparation, measuring principles and data processingSteffen Koch , CellTool - Raman application specialist, NOT SPECIFIEDHost: Rainer PepperkokSmall Operon, EMBL Heidelberg
Tags: Biophysics, Cell Biology, Chemistry and Chemical Biology
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Monday, 1 October 2012, 09:15Add to calendarOverview microscopy techniquesKai Kuetemeyer, Olympus Hamburg, GermanyHost: Rainer PepperkokATC - Courtyard A+B, EMBL Heidelberg
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Monday, 1 October 2012, 14:30Add to calendarDevelopment of a Metabolomic/Lipidomic Platform Based on a Hybrid Quadrupole Time-Of-Flight (QTof) Ion-Mobility Mass SpectrometerJohn Shockcor, Waters Corporation, Milford MA, NOT SPECIFIEDHost: Jeroen KrijgsveldSmall Operon, EMBL Heidelberg
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Friday, 19 October 2012, 14:15Add to calendarMetabolomics as a tool to study nutrition and human metabolismSofia Moco, Nestle Institute of Health Sciences, Lausanne, SwitzerlandHost: Kiran PatilBiocomp. Sem. Room, EMBL Heidelberg
Tags: Biological Networks, Chemistry and Chemical Biology, Systems Biology
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Thursday, 25 October 2012, 11:00Add to calendarInteractive web-based genetic research at 23andMe Nicholas Eriksson, 23andMe, USAHost: PhD SymposiumATC Auditorium, EMBL Heidelberg
Tags: Gene Regulation, Molecular Medicine
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Tuesday, 13 November 2012, 12:00Add to calendarDevelopment of JNK Inhibitors for Rheumatoid Arthritis and an Epigenetic Probe Library for Phenotypic ScreensWylie Palmer, Roche, New York, USAHost: Joe LewisSmall Operon, EMBL Heidelberg
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Wednesday, 21 November 2012, 15:00Add to calendarCell culture contaminations: reasons, consequences and ways out Markus Schmitt, Multiplexion, Heidelberg, GermanyHost: Joe LewisSmall Operon, EMBL Heidelberg
Abstract: The talk will focus on cell culture contaminations and human cell line authentication: In the first part, different types of contaminations, their frequency and consequences for research are discussed. In the next part, the principles of the multiplex cell contamination test and human cell authentication are described followed by suggestions on how to deal with cell culture contaminations.
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Friday, 7 December 2012, 11:00Add to calendarIX3 - The Open Source Microscope ConceptOlympus - New Micrsocope Series IX3 - Wolfgang Hempell, Section Manager Microscopy & Imaging, Olympus Europa Holding, NOT SPECIFIEDHost: Rainer PepperkokRoom 13-518 a + b, EMBL Heidelberg
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Friday, 7 December 2012, 11:30Add to calendarThe Fluoview 1200 - A new platform for confocal live cell imagingOlympus - New Micrsocope Series IX3 - Hauke Kahl, Sales Manager Live Cell Imaging, Olympus Germany, NOT SPECIFIEDHost: Rainer PepperkokRoom 13-518 a + b, EMBL Heidelberg
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Friday, 7 December 2012, 13:00Add to calendar IX3 - Advanced Imaging, Perspectives and DiscussionOlympus - New Micrsocope Series IX3 - Sven Konzack, Product Manager Advanced Imaging, Olympus Europa Holding, NOT SPECIFIEDHost: Rainer PepperkokRoom 13-518 a + b, EMBL Heidelberg
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Wednesday, 12 December 2012, 14:30Add to calendarFragment-based Lead Generation at AstraZeneca: the integrated computational chemistLoredana Spadola, Astra Zeneca, United KingdomHost: Teresa CarlomagnoSmall Operon, EMBL Heidelberg
Tags: Chemistry and Chemical Biology, Structural Biology
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Thursday, 28 February 2013, 13:30Add to calendarFrom viral vectors to tailor-made cell models -genetic modification without limitationsKathrin Schmitt, Michael Salomon, SIRION, GermanyHost: Anne-Claude Gavin & Antonella ChiapparinoRoom 202, EMBL Heidelberg
Abstract: SIRION Biotech was founded in 2006 in Munich and maintains offices in
Tokyo and New Hampshire. It stands for sophisticated cell modeling and
viral vector platforms. These enable much improved target identificationand compound screening in the drug, the food & cosmetic industries.
Its technology has over the years been validated in more than 250 commercial projects with more than 70 academic and industrial organizations worldwide. As a result, primary cell immortalizations are being technically advanced, so are the recombinant construction of adenovirus serotype vectors serving for gene therapy applications and novel vaccines
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Friday, 15 March 2013, 11:00Add to calendarChemoproteomics in GSK: Insights into how drugs (and big pharma) workGitte Neubauer, GSK Cellzome, GermanyHost: Joe LewisSmall Operon, EMBL Heidelberg
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Thursday, 11 April 2013, 14:00Add to calendarTIRF with the Olympus IX-83Hans-Joerg Behrend, Olympus, NOT SPECIFIEDHost: Stefan TerjungRoom 13-518 a + b, EMBL Heidelberg
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Monday, 15 April 2013, 09:30Add to calendarStimulated Emission Depletion (STED) microscopyWernher Fouquet, Leica, GermanyHost: Rainer PepperkokRoom 202, EMBL Heidelberg
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Thursday, 18 April 2013, 10:00Add to calendar3D live imaging with up to millimeter sized organisms - Lightsheet Z.1Sven Poppelreuther, Carl Zeiss, GermanyHost: Rainer PepperkokRoom 13-518 a + b, EMBL Heidelberg
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Thursday, 9 May 2013, 11:00Add to calendartbaPauline Ng, Genome Institute of Singapore, Singapore, SingaporeHost: Peer BorkSmall Operon, EMBL Heidelberg
Tags: Biocomputing
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Tuesday, 14 May 2013, 13:15Add to calendarPitfalls from High Throughput Screening – Lessons from recent genome wide screens using Silencer Select siRNA technologiesNitin Puri, Associate Director, Functional Genomics, Ambion Products, , NOT SPECIFIEDHost: Beate NeumannSmall Operon, EMBL Heidelberg
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Thursday, 20 June 2013, 11:00Add to calendarLive Cell Super Resolution Fluorescence Microscopy with OMXv4 BlazeDaniel White, GE Healthcare, NOT SPECIFIEDHost: Rainer PepperkokRoom 13-518 a + b, EMBL Heidelberg
Tags: Cell Biology
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Wednesday, 26 June 2013, 09:00Add to calendarThe aberration(s) - Nemesis to live cell imaging...and solutions for correction
Florian Eich, Olympus, GermanyHost: Stefan TerjungATC - Courtyard A+B, EMBL Heidelberg
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Monday, 1 July 2013, 11:15Add to calendarAndor Revolution WD dual disk spinning disk: See more, See deeperPaolo Barzaghi, Andor Technology, Germany, GermanyHost: Yury BelyaevRoom 13-518 a + b, EMBL Heidelberg
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Wednesday, 23 October 2013, 11:00Add to calendarHow to handle, visualize and analyze GByte sized 3D and 4D imagesMatthias Rust , Arivis, GermanyHost: Stefan TerjungRoom 13-518 a + b, EMBL Heidelberg
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Monday, 16 December 2013, 11:00Add to calendarInvestigating the function of proteins using a dynamic peptide microarray platform in signal transduction, cancer and biomarker research

Harald Dibowski/ Martjin Dankers, Dichrom GmbH Germany / PamGene Netherland, NOT SPECIFIEDHost: Rainer PepperkokSmall Operon, EMBL Heidelberg
Abstract: Kinases play an essential role in (cancer) biology, and many of the current drugs are kinase inhibitors. Peptide arrays constructed with phosphorylation substrates (up to 256) provide kinase activity profiles from small tissue samples, and allow inhibitor profiling. New compounds can be compared to established drugs, on- and off-target effects ascertained and kinase activity patterns studied as biomarkers in pre-clinical and clinical drug development.

This talk presents a novel multiplex kinase assay on a 3 dimensional flow-through microarray platform where kinases in complex samples as well as compounds are tested against a panel of peptides, representing known kinase substrates. This multiplex assay is performed on a fully automated microarray system, which generates kinetic read-out curves in less than 1 hour, allowing simultaneous kinase inhibitor potency/IC50, selectivity, potency and mechanism of action assessments.

In addition, we will present the latest results obtained in the application of this novel platform in biomarker discovery strategies. This approach is based on measuring kinase activities in extracts of tissues (including blood, e.g. PBMCs) and cells. Discovery of markers at this enzymatic level, i.e. at the biological level many of the new targeted drug therapies intervene, is different from many other strategies where DNA mutations/amplification, RNA or protein levels/modifications are the source of investigation. This activity-based approach is enabled by these dynamic peptide microarrays. Examples of applications of both tyrosine and serine/threonine kinase activity profiling in e.g. signal transduction research, cell line to animal model comparisons and drug response predictions will be discussed.
Tags: Cell Biology
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Monday, 13 January 2014, 09:30Add to calendarBasics in Light MicroscopyJens Marquardt, Olympus, GermanyHost: Yury BelyaevRoom 202, EMBL Heidelberg
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Tuesday, 14 January 2014, 09:30Add to calendarBasics in Fluorescence MicroscopyJens Marquardt, Olympus, GermanyHost: Yury BelyaevRoom 202, EMBL Heidelberg
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Tuesday, 18 February 2014, 09:30Add to calendarLabeling & Detection Strategies in Fluorescence MicroscopyMike Janes, Senior R&D Manager at Cellular Imaging & Analysis, Molecular Probes division of Life Techologies, Eugene USA, NOT SPECIFIEDHost: Rainer PepperkokRoom 13-518 a + b, EMBL Heidelberg
Abstract: Seminar: In this seminar we will discuss a powerful toolbox of probes, sensors and applications for cellular imaging.
• New LED-based EVOS Imaging platforms
• Workflow simplification and tips for live cell imaging
• Overview of new Molecular Probes reagents for fluorescence microscopy including:
o Cell structure
o Basic cellular function: proliferation, cell cycle, and internalization, o Cell stress & death: Apoptosis, autophagy, and oxidative stress
In the break and after the seminar:
Hands-on time: In this practical session, we will introduce you to our Ready Probes reagents and EVOS imaging platform, including live cell demonstrations of probes for cell structure and apoptosis. Feel free to bring your own samples as well!
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Tuesday, 11 March 2014, 09:30Add to calendarIntroduction to 3D Confocal Raman ImagingMax Stadler, WiTec, GermanyHost: Rainer PepperkokATC - Flex Labs A+B , EMBL Heidelberg
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Tuesday, 11 March 2014, 10:15Add to calendarBio-Imaging of Historic Tissue SpecimenMarek Janko, TU Darmstadt, GermanyHost: Rainer PepperkokATC - Flex Labs A+B , EMBL Heidelberg
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Tuesday, 11 March 2014, 12:00Add to calendar3D Raman Imaging meets AFM, SNOM and ProfilometryDavid Steinmetz, WITec, GermanyHost: Rainer PepperkokATC - Flex Labs A+B , EMBL Heidelberg
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Wednesday, 2 July 2014, 14:00Add to calendarHow to monitor cell cultures on your smartphone. Meet the world's easiest live imaging systemJoffry Maltha, Cytomate Technology BV, Netherland, , NetherlandsHost: Yury BelyaevRoom 6.51 a, EMBL Heidelberg
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Tuesday, 15 July 2014, 10:30Add to calendarOpterra-The New Way of Multipoint Confocal ImagingRobert Stad, Bruker, , The Netherlands, NetherlandsHost: Yury BelyaevSmall Operon, EMBL Heidelberg
Abstract: Providing flexible aperture size and unique spectral capabilities
Traditionally, a multi-pinhole confocal is the device of choice for life cell imaging experiments. The higher scan speeds and the use of higher quantum efficiency detectors result in much reduced photo bleaching and photo toxicity, keeping your sample alive.
The current standard in multi-pinhole confocal microscopes suffers from a lack of flexibility in choosing the optimal pinhole size for a given objective magnification and results in a trade off in either resolution or signal. Bruker s innovative Opterra uniquely delivers multi-pinhole confocal imaging with a choice of 3 different pinhole sizes and 4 different slit sizes to allow optimization of your experimental set-up for increased spatial or temporal resolution with just the click of a button. Our patented optical design even allows for unique multi-pinhole spectral detection, which enables researchers to acquire 15 spectral channels at speeds of up to 4 frames per second with very high sensitivity. In addition, for studying protein dynamics the Opterra can be extended with a flexible photo-manipulation scanner that allows both single and multi photon simultaneous manipulation
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Tuesday, 15 July 2014, 11:15Add to calendarMapping receptors on living cells by PeakForce TappingAlexander Dulebo, Bruker, Netherlands, NetherlandsHost: Yury BelyaevSmall Operon, EMBL Heidelberg
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Tuesday, 15 July 2014, 15:00Add to calendarA whole new scienceAlen Piljic, Life Science Network gGmbH, GermanyHost: Carsten SchultzSmall Operon, EMBL Heidelberg
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Tuesday, 30 September 2014, 09:30Add to calendarSingle-Molecule RNA FISH with RNAscopeKai Wilkens, Advanced Cell Diagnostics, GermanyHost: Lars VeltenSmall Operon, EMBL Heidelberg
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Thursday, 30 October 2014, 09:30Add to calendarTrouble finding your images? Use Huygens Titan.Remko Dijkstra and Gitta Hamel , Scientific Volume Imaging, NetherlandsHost: Yury BelyaevRoom 13-518 a + b, EMBL Heidelberg
Abstract: If you are struggling keeping an overview of all your microscopic images and have trouble finding them within your growing pool of data, then this workshop might be of interest to you.
Huygens Titan is not a database, but a light-weight software that indexes, finds and shows your 2D-5D microscopic image data. All common microscope formats on any accessible storage location can be read. Titan does not alter or move your precious images. Behind the scenes, it visits the images to extract meta data and statistics, and to make thumbnails; even from embedded files like Leica lif and Zeiss czi. Advanced search functions are available, annotations can be easily added, and images can be assigned to specific projects. 3D-5D Image data can be visualized in Titan Viewer and directly opened in your file manager, in Huygens Essential, or in Professional for deconvolution and analysis.
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Thursday, 11 December 2014, 11:00Add to calendarNew Insights into the Human Genome revealed by PacBio SMRT SequencingJonas Korlach, CSO, Pacific Biosciences, USAHost: Jan KorbelSmall Operon, EMBL Heidelberg
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Thursday, 18 December 2014, 11:00Add to calendarEVERY CELL IS UNIQUE: CyTOF 2®, Discover a New Approach to Single-Cell ProteomicsAndrius Serva, CyTOF Application Scientist, Germany (Hamburg), GermanyHost: Rainer PepperkokSmall Operon, EMBL Heidelberg
Abstract: CyTOF 2® mass cytometer uniquely isolates signal from more than 36 probes on a single-cell basis, providing researchers with an unparalleled ability to perform system-wide proteomics that advance studies in basic science, drug discovery, and clinical research
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Thursday, 29 January 2015, 12:00Add to calendarMetabolomics: From Science to Application and how MS-Omics can contributeMorten Nielsen, MS-OMICS, DenmarkHost: Kiran PatilSmall Operon
Tags: Biocomputing, Structural Biology
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Monday, 2 February 2015, 09:30Add to calendarBasics of Light MicroscopyJens Marquardt, Olympus, GermanyHost: Stefan TerjungRoom 202, EMBL Heidelberg
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Tuesday, 3 February 2015, 09:30Add to calendarBasics of Fluorescence MicroscopyJens Marquardt, Olympus, GermanyHost: Stefan TerjungRoom 202, EMBL Heidelberg
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Tuesday, 10 February 2015, 11:00Add to calendarOpen Science Publishing - beyond Open AccessMichaela Torkar, Editorial Director at F1000Research, United KingdomHost: Wolfgang HuberSmall Operon, EMBL Heidelberg
Abstract: The journal F1000Research operates a unique post-publication peer-review model. F1000Research is an open science platform for life scientists, offering immediate publication and transparent peer review, avoiding editorial bias. It is part of Faculty of 1000 and was set up by Vitek Tracz, who amongst other things started BioMed Central (including Genome Biology, where Michaela used to work).
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Monday, 23 February 2015, 09:30Add to calendarBasics of Confocal MicroscopyFlorian Eich, Olympus, GermanyHost: Stefan TerjungATC - Courtyard A+B, EMBL Heidelberg
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Thursday, 26 February 2015, 15:00Add to calendarNew Reagent and Instrument Solutions for Flow CytometryKyle Gee, Thermo Fisher Scientific, USAHost: Alexis Perez GonzalezSmall Operon, EMBL Heidelberg
Abstract: Kyle is a Senior Director and group leader at Molecular Probes and has very deep experience in the field of fluorescent cell analysis. His group has developed nearly all the Molecular Probes reagents used for fluorescence microscopy, flow cytometry, and microplate assays. He will present their entire Cellular Analysis reagent portfolio. In addition to speaking about applications and presenting performance data, he can provide insight into the molecular detail underlying the reagents, e.g. mechanism of action, scope and limitations of reagent products, etc.
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Tuesday, 3 March 2015, 11:00Add to calendarsiPOOLs: complex and defined siRNA pools prevent off-target effectsMichael Hannus, siTools, GermanyHost: Beate NeumannSmall Operon, EMBL Heidelberg
Abstract: For years, RNAi was considered the magic bullet of functional genomics, promising fast, specific and scalable genetic intervention.

Hype was followed by disappointment when it was shown that off-target effects frequently dominate the phenotypic response in RNAi experiments. Nevertheless, RNAi remains the standard technique for gene inactivation because of its many advantages, such as transient, dose-dependent effects and ease of arrayed screening.

Complex siRNA pools apply a conceptually simple but efficient approach to prevent off-target effects: All siRNAs share the same on-target gene but have different off-target footprints. As a result, off-target effects are efficiently diluted and target gene knockdown becomes very robust.
http://www.sitoolsbiotech.com/

The talk is also open for non-EMBL members.
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Monday, 9 March 2015, 15:00Add to calendarDEPArray: Image-based, semi-conductive cell sorting for isolation of single cells or pools of target cellsHans Peter Arnold, Silicon Biosystems, GermanyHost: Alexis Perez GonzalezSmall Operon, EMBL Heidelberg
Abstract: Silicon Biosystems DEPArray enables the isolation of individual cells or pools of target cells. Cells are gently captured and moved on a semi-conductive chip consisting of 300,000 separately addressable electrodes in dielectric cages. Following the fluorescent signals of cells by labelling e.g. with specific dye-coupled antibodies and by bright field analysis, specific cells of interest can be identified and selected based on the microscopical images for automated recovery as pure single cells or pools of cells from heterogeneous samples.

The successful use of DEPArray has been demonstrated for the following applications which will be presented in this seminar:
- Targeted isolation of viable cells (e.g. stem cells) for downstream proliferation and differentiation in vitro from heterogeneous tissues and cell cultures.
- Isolation of rare cells like circulating tumour cells (for downstream genetic analysis, e.g. by aCGH or NGS)
- Targeted isolation of cell pools from heterogeneous samples, like tumour cells from disaggregated formalin-fixed paraffin-embedded samples (FFPE) to analyse tumour heterogeneity by Next Generation Sequencing (NGS)

The microscopic inspection of cells prior to their selection for subsequent automated isolation as supported by DEPArray technology, allows the user to recover intact cells which are 100% pure and not associated with any contaminations like cell debris. DEPArray is currently the only commercially available system supporting the targeted manipulation and recovery of single cells or cell pools via di-electrophoresis (DEP) based on the use of a software-controlled semi-conductive chip.

Please find links to a video introducing into the DEPArray technology and to some pdf formatted application notes for DEPArray below.
Video: http://www.siliconbiosystems.com/deparray-technology
Application notes: http://www.siliconbiosystems.com/application-notes
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Tuesday, 14 April 2015, 10:00Add to calendarIN Cell Analyzer 2200 HCA Automated Microscopy SystemDaniel J. White, GE Healthcare, Life Sciences - Cell Technologies, GermanyHost: Beate NeumannRoom 13-518 a + b, EMBL Heidelberg
Abstract: Super-fast, sensitive, and flexible wide-field cell imaging system for a broad range of high-content assays.
Bring your own samples and carry out fixed end-point assays as well as extended live-cell studies.
Perform anything from investigative microscopy to automated high-content screening.
Image organelles, cells, tissues, and whole organisms.
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Tuesday, 16 June 2015, 10:00Add to calendarNext generation HCS.
How a machine approach can change the game.
Andreas Pfuhl, ACQUIFER AG, GermanyHost: Beate NeumannRoom 202, EMBL Heidelberg
Abstract: In this presentation, we introduce ACQUIFER s newly developed automated Imaging Machine (IM03), a modern and very efficient system designed for high content screening and ease of data handling.
The IM03 is based on a forward-thinking, minimalist approach. Its machine grade hardware enables high mechanical precision and robust long-term operation. IM03 facilitates the reproducible execution of identical screening workflows even on multiple machines. The device can be controlled in three basic manners: via assay specific apps, a smart imaging interface or external software. This level of flexibility enables a variety of unique workflows that can be tailored to any specific laboratory or production environment.
The IM03 is compatible with various assays using model organisms such as zebrafish, drosophila and yeast or cellular systems.
With the connection to the unique data microenvironment system HIVE, a subsequent processing and analysis is tailored to large data requirements and most suitable open source and commercial workflows.
Due to its connectivity, the hive can act as a central data repository and processing unit for other microscopes in the lab.

After the presentation, we offer a hands-on session in the ALMF.
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Tuesday, 23 June 2015, 11:00Add to calendar1. Nikon's new generation cameras for microscopy (talk by Simone Lepper)
2. Nikon's advanced mircroscopy systems (talk by Klaus Nettesheim)
Simone Lepper, Nikon, GermanyHost: Stefan TerjungRoom 202, EMBL Heidelberg
Abstract: Lecture accompanying demonstration of DS-Ri2 and DS-Qi2 microscope cameras, SMZ18/SMZ25 and Ti-E @ EMBL from 22. - 26. June 2015, Room 13-516A
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Friday, 3 July 2015, 11:00Add to calendarCRISPR-based Genome Editing Tools: New Applications and Streamlined WorkflowsJon D. Chesnut, Thermo Fisher Scientific, USAHost: Vladimir BenesSmall Operon, EMBL Heidelberg
Abstract: CRISPR-Cas9 is rapidly evolving as the tool
of choice for genome editing in mammalian c cells. However, the delivery of Cas9 and synthesis of guide RNA (gRNA) remain two
steps that limit overall efficiency and
general ease of use. Here we describe novel
methods for rapid synthesis of gRNA and
delivery of Cas9 protein/gRNA complexes into a variety of cells. This workflow enables highly efficient genome editing and biallelic knockout of multiple genes in hard-to-transfect cells in as little as three to four days. The reagent preparation and delivery to cells requires no plasmid manipulation so is amenable for high throughput, multiplexed genome-wide cell engineering.
Further, we will show data using lentivirus-based CRISPR delivery for high-throughput screening of mammalian cell populations. We are creating gene family-specific arrayed libraries of CRISPR-lenti particles that will enable high throughput, arrayed gene knockout screens using various cell types.
These two CRISPR-based gene-editing platforms represent the latest in the rapid evolution of editing tools for mammalian genomes by simplifying cell engineering workflow and providing a pre-designed, ready to use platform for efficient compound screening in mammalian cell lines.
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Cancelled - Tuesday, 14 July 2015, 10:00Add to calendarTissue Cytometry and Tissue Sociology A New Technology to
Look at Cells and Cellular Interaction in (Cancer) Tissue and Cell Cultures
Rupert Ecker, TissueGnostics GmbH, AustriaHost: Stefan TerjungRoom 13-518 a + b, EMBL Heidelberg
Abstract: TissueFAXS Cytometry is a high-end
scanning system for slides and well plates
that comes with powerful image analysis
software. It offers a high degree of
automation, paired with user interaction at
relevant points of the analytical
workflow. This platform can be applied as
a means of tissue cytometry for both
immunofluorescence and IHC in
end-point assays as well as live-cell
imaging.
The TissueFAXS Cytometry platform has
been used in more than 500 scientific
publications, including clinical
multi-center studies.
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Friday, 24 July 2015, 09:00Add to calendarIntroduction to STED DeconvolutionHans Van der Voort, Scientific Volume Imaging b.v., NetherlandsHost: Marko LampeATC - Courtyard A+B, EMBL Heidelberg
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Wednesday, 5 August 2015, 13:00Add to calendarSTED and RSFP-based RESOLFT nanoscopy of living and fixed cells
Benjamin Harke, Tim Grotjohann, Abberior Instruments, Göttingen, GermanyHost: Marko LampeRoom 13-518 a + b, EMBL Heidelberg
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Tuesday, 22 September 2015, 15:00Add to calendarSMARTer® Solutions for Next-Gen SequencingSuvarna Gandlur, Clontech Laboratories, Inc., USAHost: Vladimir BenesRoom 329, EMBL Heidelberg
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Friday, 25 September 2015, 10:00Add to calendarIntroducing the CellViewer Single Cells/spheroid/Embryo AnalyzerLuca Sereni, CellDynamics, GermanyHost: Stefan TerjungSmall Operon, EMBL Heidelberg
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Tuesday, 29 September 2015, 09:30Add to calendarShort introduction to the Ti-E microscope Simone Lepper, Nikon GmbH - Microscope Solutions, GermanyHost: Beate NeumannSmall Operon, EMBL Heidelberg
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Thursday, 1 October 2015, 10:00Add to calendarTissue Cytometry and Tissue Sociology A New Technology to
Look at Cells and Cellular Interaction in (Cancer) Tissue and Cell Cultures
Radu Rogojanu, TissueGnostics GmbH, AustriaHost: Stefan TerjungRoom 13-518 a + b, EMBL Heidelberg
Abstract: TissueFAXS Cytometry is a high-end scanning system for slides and well plates that comes with powerful image analysis software. It offers a high degree of automation, paired with user interaction at relevant points of the analytical workflow. This platform can be applied as a means of tissue cytometry for both immunofluorescence and IHC in end-point assays as well as live-cell imaging.
The TissueFAXS Cytometry platform has been used in more than 500 scientific
publications, including clinical multi-center studies.
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Thursday, 1 October 2015, 14:30Add to calendarGenome editing a new era with CRISPR based methodsAndreas Dorn, Thermo Fisher, GermanyHost: Vladimir BenesSmall Operon, EMBL Heidelberg
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Thursday, 1 October 2015, 16:00Add to calendarNew Tools for Successful CRISPR/CAS9 Genome Editing- Discover how to speed up your workflow with Guide- itTMCornelia Hampe, Takara Bio Europe SAS, GermanyHost: Vladimir BenesSmall Operon, EMBL Heidelberg
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Friday, 16 October 2015, 11:00Add to calendarHigh speed photon counting with KETEK SiPMs:
Technology, state of the art and possible applications in microscopy, bioimaging and life science
Werner Hartinger, KETEK GmbH, GermanyHost: Yury BelyaevRoom 13-518 a + b, EMBL Heidelberg
Abstract: Silicon Photomultipliers (SiPM) are relatively new photodetectors with the potential to replace classical Photo Multiplier Tubes (PMT).
Essential technical key features of SiPMs are their capability to count single photons up to thousands of photons, their high photon detection efficiency (PDE), superior temperature stability and their excellent timing performance. SiPMs are also very compact, insensitive to magnetic fields and they cannot be damaged by accidental illumination.
In a short overview the working principle and parameters of our SiPMs and their capabilities will be explained. The current state of the art and the achievable detection performance will be presented. As a possible application in optical imaging, first results of a two-photon excitation microscopy with a SiPM in comparison to a PMT will be shown.
In order to achieve further improvements, KETEK has realized process modifications of its established SiPM technology enhancing the max. single photon timing resolution (SPTR), reducing the SiPM noise and increasing the geometrical efficiency (GE) of the sensor packaging.
The processed devices will be presented and compared to the earlier established technology and an outlook on coming features will be given
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Tuesday, 24 November 2015, 09:00Add to calendarData processing and experimental phasing: from easy to difficult casesClemens Vonrhein, Global Phasing Ltd, United KingdomHost: Mandy JeskeSmall Operon, EMBL Heidelberg
Tags: Biocomputing, Structural Biology
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Thursday, 26 November 2015, 13:15Add to calendarComputing cancer.Jasmin Fisher, Microsoft Research, University of Cambridge, United KingdomHost: Francois Nedelec/Karin SasakiSmall Operon, EMBL Heidelberg
Abstract: Cancer is a highly complex aberrant cellular state where mutations impact a multitude of signalling pathways operating in different cell types. In recent years it has become apparent that in order to understand and fight cancer, it must be viewed as a system, rather than as a set of cellular activities. This mind shift calls for new techniques that will allow us to investigate cancer as a holistic system. In this talk, I will discuss some of the progress made towards achieving such a system-level understanding using computer modelling of biological behaviours, also known as Executable Biology. I will concentrate on our recent attempts to better understand cancer through the following examples: 1) drug target optimization for Chronic Myeloid Leukaemia using an innovative platform called BioModelAnalyzer, which allows to prove stabilization of biological systems; 2) dynamic hybrid modelling of Glioblastoma (brain tumour) development; 3) state-based modelling of cancer signalling pathways and their analysis using model-checking; and 4) synthesis of blood stem cell programs from single-cell gene expression data. Looking forward, I will propose a grand challenge for computing and biology that could shed new light on our ability to control cell fates during development and disease and potentially change the way we treat cancer in the future.Tags: Cell Biology
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Monday, 29 February 2016, 09:30Add to calendarBasics in Confocal MicroscopyGabriele Burger, Leica Microsystems, GermanyHost: Stefan TerjungRoom 202, EMBL Heidelberg
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Tuesday, 12 April 2016, 10:00Add to calendarCytation5 Cell Imaging Multi-Mode Reader Automated Microscopy & Multi-Mode DetectionJoel Mailliet, BioTek, GermanyHost: Vladimir RybinSmall Operon, EMBL Heidelberg
Abstract: Cytation5 combines the detection optics of conventional microplate readers with an automated digital fluorescence
microscope allowing different methods to be performed in one experiment. After the presentation there will be instrument
demonstration with a possibility to measure your own samples.
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Tuesday, 19 April 2016, 09:30Add to calendarSTED Principles & ApplicationsJochen Sieber, Leica Microsystems, GermanyHost: Marko LampeRoom 202, EMBL Heidelberg
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Tuesday, 19 April 2016, 11:00Add to calendarRESOLFT and STED nanoscopy in living cells Christian Wurm / Tim Grotjohann, Abberior Instruments, GermanyHost: Marko LampeRoom 202, EMBL Heidelberg
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Tuesday, 17 May 2016, 09:00Add to calendarInformation-driven docking with HADDOCKEzgi Karaca, EMBL, Barabas Group, GermanyHost: Mandy JeskeRoom 6.51 a, EMBL Heidelberg
Tags: Biocomputing, Structural Biology
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Wednesday, 22 June 2016, 11:00Add to calendarAutomated single cell isolation with computer visionBálint Szabó, Facsinapetri, HungaryHost: Beate NeumannRoom 13-518 a + b, EMBL Heidelberg
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Monday, 11 July 2016, 11:00Add to calendarOrbitrap technologies and applicationsAlexander Makarov, Thermo Fisher Scientific, GermanyHost: Mikhail SavitskiLarge Operon, EMBL Heidelberg
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Friday, 29 July 2016, 13:00Add to calendarIntroduction to STED DeconvolutionHans Van der Voort, Scientific Volume Imaging b.v., NetherlandsHost: Marko LampeATC - Courtyard A+B, EMBL Heidelberg
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Friday, 9 September 2016, 17:05Add to calendarFuture of publishing panel discussion: Publishing and Preprints - Optimizing how we share reliable researchBernd Pulverer, Jessica Polka, Thomas Lemberger, ASAPbio and EMBO, GermanyATC Auditorium, EMBL Heidelberg
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Monday, 19 September 2016, 11:00Add to calendarAdvances in Microscopy-based Single Cell IsolationChris Wetzel, MMI Microscopy-based Single Cell Isolation, GermanyHost: Stefan TerjungSmall Operon, EMBL Heidelberg
Abstract: This presentation is to give an overview on a demo by MMI on Single Cell Isolation. The equipment will be available 19-22 September.

All interested are welcome, please contact almf@embl.de if you want to try single cell isolation during this demo!
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Tuesday, 25 October 2016, 16:30Add to calendarTransparent Publishing, Preprints & Open Science: how to share reproducible dataBernd Pulverer, Scientific Publications, EMBO, GermanyHost: Helke Hillebrand Internal TrainingSmall Operon, EMBL Heidelberg
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Monday, 30 January 2017, 09:30Add to calendarBasics in Light Microscopy
Peter Vander, Olympus, GermanyHost: Stefan TerjungRoom 13-518 a + b, EMBL Heidelberg
Company Representative
Tuesday, 31 January 2017, 09:30Add to calendarBasics in Fluorescence MicroscopyPeter Vander, Olympus, GermanyHost: Stefan TerjungRoom 202, EMBL Heidelberg
Company Representative
Postponed - Thursday, 2 February 2017, 09:30Add to calendarRoles and selection procedures in IndustryAileen D Oria, Thermo Fisher Scientific, GermanyHost: Monika Lachner & Rachel Coulthard-GrafSmall Operon, EMBL Heidelberg
Company Representative
Thursday, 2 February 2017, 10:00Add to calendarLaser Microdissection Bridging the gap between Microscopy and Molecular AnalysisMonica Stich, Zeiss Microscopy Labs Munich, GermanyHost: Stefan TerjungRoom 13-518 a + b, EMBL Heidelberg
Company Representative
Tuesday, 7 February 2017, 11:00Add to calendarThe next generation of super resolution microscopes has arrived-meet the NanoimagerMichael Senior, Oxford Nanoimaging, United KingdomHost: Marko LampeRoom 202, EMBL Heidelberg
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Tuesday, 21 March 2017, 15:00Add to calendarInnovation after innovation:
3D Biology, Hyb & Seq and Digital Spatial Profiling
Jim White, NanoString Technologies, USAHost: Vladimir BenesRoom 202, EMBL Heidelberg
Company Representative
Wednesday, 29 March 2017, 10:00Add to calendarUpdates on Nanopore TechnologyClive Brown, Oxford Nanopore, USAHost: Vladimir BenesSmall Operon, EMBL Heidelberg
Company Representative
Thursday, 1 June 2017, 10:00Add to calendarOMX SR: The next generation live cell fluorescence microscopy platform - Beating confocal in contrast, resolution and speed, with 3D-SIM, TIRF-SIM, and Image Contrast Restoration, using the same samples you already have.
Daniel White, GE Healthcare, GermanyHost: Rainer PepperkokSmall Operon, EMBL Heidelberg
Company Representative
Friday, 14 July 2017, 14:30Add to calendarIntroduction to STED DeconvolutionHans van der Voort, Scientific Volume Imaging, NetherlandsHost: Marko LampeATC - Courtyard A+B, EMBL Heidelberg
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Friday, 27 October 2017, 11:00Add to calendarSTEDYCON STED in a Shoebox Janina Hanne, Abberior, GermanyHost: Marko LampeRoom 417, EMBL Heidelberg
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Wednesday, 8 November 2017, 11:00Add to calendarSynthetic Biology Seminar: Applications and Future VisionEmily Leproust, CEO Twist Bioscience, GermanyHost: Daniel SchraivogelSmall Operon, EMBL Heidelberg
Company Representative
Tuesday, 23 January 2018, 10:00Add to calendarBiology at Enamine: Things you can do having 2.5 million compounds next door.Iaroslava Kos, Bienta/Enamine Biology Services, GermanyHost: Joe LewisSmall Operon, EMBL Heidelberg
Tags: Chemistry and Chemical Biology
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Monday, 19 February 2018, 09:30Add to calendarBasics in Light MicroscopyJens Marquardt, Olympus, GermanyHost: Stefan TerjungRoom 202, EMBL Heidelberg
Company Representative
Tuesday, 20 February 2018, 09:30Add to calendarBasics in Fluorescence MicroscopyJens Marquardt, Olympus, GermanyHost: Stefan TerjungRoom 202, EMBL Heidelberg
Company Representative
Monday, 16 April 2018, 09:30Add to calendarBasics in Confocal MicroscopySebastien Peter, Olympus, GermanyHost: Stefan TerjungSmall Operon, EMBL Heidelberg
Company Representative
Tuesday, 24 April 2018, 18:00Add to calendarR&D careers seminar and CV workshop from Novo NordiskLee Milligan, Henning Pontoppidan Föh and Johan Paulsson, Novo Nordisk, DenmarkHost: EICAT (PhD and Postdoctoral Programmes)Large Operon, EMBL Heidelberg
Abstract: The seminar will include two talks from R&D scientists at Novo Nordisk where you can learn more about industry R&D and what it's like to work as a scientist in Pharma, as well as a short CV workshop.
Company Representative
Wednesday, 9 May 2018, 10:00Add to calendarImaging Mass Cytometry - Comprehensively interrogate tissue in spatial contextRoberto Spada, Fluidigm, GermanyHost: Malte PaulsenSmall Operon, EMBL Heidelberg
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Monday, 11 June 2018, 10:00Add to calendar3D SML Microscopy with Biplane technology - from data acquisition to analysisCarl Ebeling, Bruker Nano Surfaces Division, GermanyHost: Stefan TerjungRoom 202, EMBL Heidelberg
Company Representative
Thursday, 14 June 2018, 15:00Add to calendarSpinning Disk SolutionsKlaus Nettesheim, Simone Lepper, Nikon, GermanyHost: Beate NeumannRoom 202, EMBL Heidelberg
Tags: Imaging and Image Analysis
Company Representative
Thursday, 5 July 2018, 16:00Add to calendarInnovation @ Boehringer Igelheim: Company presentation and networking receptionBoehringer Ingelheim, Research and Partnering, GermanyHost: Corporate Partnership ProgrammeCanteen, EMBL Heidelberg
Abstract:
CHAMPIONING INNOVATION
Our track record of bringing breakthrough medicines to patients starts with new ideas and new science. And collaborations with external partners play an essential role in helping us deliver an innovation-led portfolio. Join us at our company presentation followed by a networking reception so we can learn from each other to develop the next generation of medicines. For more information on our partnering interests visit: www.boehringer-ingelheim.com/partnering/interests.

MEET RESEARCH AND PARTNERING TEAMS
15:45-16:15 Registration and Welcome Drinks
16:15-17:15 Company Presentation
- Boehringer Ingelheim's approach to research and partnering
- Strategy and activities of Boehringer Ingelheim's Venture Fund
- Boehringer Ingelheim's ongoing activities in the Heidelberg region Q&A and Open Discussion
17:15-19:00 Networking Reception

Our research and partnering leadership teams will be available throughout the event and at our networking reception in the evening. Learn more about our research and partnering interests and ways to partner with us, and meet our senior research and partnering leadership teams:
- Clive Wood (Global Head of Discovery Research)
- Paola Casarosa (Global Head BD&L)
- Adrian Carter (Global Head Discovery Research Coordination)
- Marcus Kostka (Director BI Venture Fund) and
- Many colleagues from our research and licensing teams as well as external collaborators.

PLEASE REGISTER TO ATTEND BY 29 JUNE
To register your interest please go to https://www.eventbrite.com/e/boehringer-ingelheim-networking-reception-tickets-4558374119

For more information please contact Birgit Rogell from BioRN (br@biorn.org)
Company Representative
Friday, 13 July 2018, 09:00Add to calendarIntroduction to superresolution deconvolutionHans van der Voort, Scientific Volume Imaging, NetherlandsHost: Marko LampeATC - Courtyard A+B, EMBL Heidelberg
Company Representative
Tuesday, 17 July 2018, 16:00Add to calendarMarianas - Customizable advanced fluorescence microscopy platform for live cell researchNicole Zobiak, Intelligent Imaging Innovations (I3), GermanyHost: Stefan TerjungRoom 13-518 a + b, EMBL Heidelberg
Company Representative
Monday, 30 July 2018, 16:00Add to calendarVisiScope: A Flat-field corrected Spinning Disk Confocal Microscope by Visitron SystemsSteven Bump, Visitron, GermanyHost: Stefan TerjungRoom 13-518 a + b, EMBL Heidelberg
Company Representative
Wednesday, 5 September 2018, 09:45Add to calendarNanopore sequencing - from basics to the latest updatesRichard Compton, Oxford Nanopore Technologies, United KingdomHost: Vladimir BenesSmall Operon, EMBL Heidelberg
Company Representative
Wednesday, 5 September 2018, 10:15Add to calendar MinION in Mission MinION for Outbreak Reconnaissance at the German Forces Markus Antwerpen, Bundeswehr, GermanyHost: Vladimir BenesSmall Operon, EMBL Heidelberg
Company Representative
Tuesday, 11 September 2018, 11:00Add to calendarOptogenetics combined with Flow CytometryKathrin Brenker, Opto Biolabs, GermanyHost: Malte PaulsenRoom 13-518 a + b, EMBL Heidelberg
Abstract: Optogenetic tools allow isolated, functional investigations of almost any signaling molecule within complex signaling pathways. A major obstacle is the controlled delivery of light to the cell sample and hence the most popular tools for optogenetic studies are microscopy-based cell analyses and in vitro experiments. The flow cytometer has major advantages over a microscope, including the ability to rapidly measure thousands of cells at single cell resolution. However, it is not yet widely used in optogenetics. Opto Biolabs, a spin-off from the University of Freiburg, developed a device that combines the power of optogenetics and flow cytometry.
This device illuminates cells at specific wavelengths, light intensities and temperatures during flow cytometric measurements. To demonstrate its utility, we characterized the photoswitching kinetics of Dronpa proteins in vivo and in real time and measured light-induced calcium kinetics. This protocol can be adapted to almost all optically controlled substances and substantially expands the set of possible experiments. More importantly, it will greatly simplify the discovery and development of new optogenetic tools.
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Thursday, 13 September 2018, 14:00Add to calendarCharacterizing degradation kinetics and cellular mechanisms of PROTAC compoundsDanette Daniels, Promega, USAHost: Joe LewisRoom 6.51 b, EMBL Heidelberg
Abstract: A new generation of pharmacologic compounds resulting in degradation of target proteins, termed degronomids or PROTACs, hold significant therapeutic potential with possible prolonged pharmacodymanics, improved potency, and ability to target proteins previously thought of as undruggable . These degradation compounds are bivalent inhibitors consisting of two components; an inhibitor which specifically binds to the target protein bridged via a linker to an inhibitor that recruits ubiquitin machinery. The machinery proteins predominantly utilized are von Hippel-Lindau tumor suppressor (VHL) and Cereblon (CRBN), both of which are adaptor proteins of much larger and distinctive ubiquitin E3 ligase complexes. In this study we compare the mechanisms of degradation of bromodomain BET family members mediated through bivalent inhibitors consisting of JQ1 tethered to either VHL or CRBN recruiters, termed MZ1 and dBET1 respectively. We explore dose-dependent kinetics of degradation, persistence of degradation, target recovery, ubiquitination of target, and live cell monitoring of the induced interaction with the respective E3 ligase components. To facilitate the above studies we have endogenously tagged BET family members with an 11 amino peptide, termed HiBiT, using the CRISPR/Cas9 system. The HiBiT peptide, which has high affinity for and can complement with the LgBiT protein to produce NanoBiT luminescence, allows for highly sensitive detection of endogenous protein levels in living cells, and also can serve as a BRET energy donor to study protein interactions. Our data show varying degradation rates, persistence, and recovery of BET family members between MZ1 and dBET1 treatments, as well as differences amongst BET family members using the same degradation compound. These studies further the understanding of mechanism facilitated by degradation compounds, highlight the differential responses of BET family members, and also how the choice of E3 ligase component is an important consideration in the therapeutic development of this new class of compounds.
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Tuesday, 18 September 2018, 11:00Add to calendarDragon Fly Spinning Disc Microscope with Super Resolution Modalities Bruno Combettes, Andor, United KingdomHost: Beate NeumannSmall Operon, EMBL Heidelberg
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Thursday, 8 November 2018, 10:00Add to calendarBiological applications of quantitative ultrafast FLIMMaria Loidolt-Krüger , PicoQuant GmbH, GermanyHost: Stefan TerjungSmall Operon, EMBL Heidelberg
Company Representative
Thursday, 6 December 2018, 14:15Add to calendarBasic introduction into eLabjournal - key featuresFlorian Studerer, Bio-ITech, GermanyHost: Sara Cuylen-HaeringSmall Operon, EMBL Heidelberg
Abstract: Replacing paper lab notebooks by electronic notebooks has been a long-standing wish for many labs at EMBL. After testing several options, CBB and DB Units recently decided to license the commercial software eLabjournal" from Bio-ITech (https://www.elabjournal.com) with a dedicated server at EMBL.
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Monday, 10 December 2018, 14:00Add to calendarAccessing Forces in Biology from Single Molecules to Cells: Introducing the AFS and C-Trap technologyDr. Ann Mukhortava and Dr. Philipp Rauch, LUMICKS B.V., Amsterdam, NetherlandsHost: Shveta BishtRoom 202, EMBL Heidelberg
Tags: Cell Biology
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Tuesday, 15 January 2019, 13:00Add to calendarPRIMO: Bioengineering microenvironments for cell biologyMehmet Deniz Akyuz, Alvelolé Company, Paris, FranceHost: Julia MahamidATC - Seminar room A Helix, EMBL Heidelberg
Tags: Biocomputing, Cell Biology, Structural Biology
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Monday, 21 January 2019, 09:30Add to calendarBasics in Light Microscopy
Jens Marquardt, Olympus, GermanyHost: Stefan TerjungRoom 202, EMBL Heidelberg
Company Representative
Tuesday, 22 January 2019, 09:30Add to calendarBasics in Fluorescence MicroscopyJens Marquardt, Olympus, GermanyHost: Stefan TerjungRoom 13-518 a + b, EMBL Heidelberg
Company Representative
Tuesday, 12 February 2019, 09:30Add to calendarBasics in Confocal Microscopy
Ulf Schwarz, Leica, GermanyHost: Stefan TerjungRoom 202, EMBL Heidelberg
Company Representative
Monday, 25 February 2019, 14:00Add to calendarApplications of long term live cell imaging with digital holotomographic micrsoscopyMarlies Mürnseer, Nanolive SA, SwitzerlandHost: Stefan TerjungRoom 13-518 a + b, EMBL Heidelberg
Company Representative
Tuesday, 26 February 2019, 14:00Add to calendarMagnetic Levitation for Single Cell AnalysisAndreja Jovic, R&D Levitas Bio, USAHost: Malte PaulsenRoom 202, EMBL Heidelberg
Abstract: Some of you may have already seen the great movies from Lars Steinmetz using a strong magnetic field coupled with microfluidics to separate cells based on intrinsic, differential magnetism. This was applied to work in Stanford and we will now have a Levitasbio LeviCell instrument with us at EMBL to explore different applications. Andreja Jovic will give a presentation about the technology, current applications and hopefully start a lively discussion about what EMBL scientist might like to try with the test-instrument. Please come and join us for an interesting presentation and some coffee and cookies thereafter.
www.levitasbio.com
Discover how magnetic levitation technology can provide a simpler, gentler, and more efficient method of cellular and particle analysis and separation.
Company Representative
Tuesday, 5 March 2019, 10:00Add to calendarPRIMO: Bioengineering microenvironments for cell biologyMehmet Deniz Akyuz, Alvelolé Company, Paris, FranceHost: Stefan TerjungSmall Operon, EMBL Heidelberg
Company Representative
Wednesday, 6 March 2019, 15:00Add to calendarIntroduction to Touchless Sample Preparation for Genomics ApplicationsDominik Zahr, Labcyte, GermanyHost: Vladimir BenesSmall Operon, EMBL Heidelberg
Abstract: Every experiment performed in life sciences, molecular medicine, drug
discovery, genomics research, and diagnostic testing involves liquid
handling. Labcyte s award-winning products use acoustic energy to
transfer precise amounts of fluids without touching them. This capability
significantly improves data quality and reliability, while eliminating or
substantially reducing costs associated with pipette tips, reagents and
waste disposal. Equally important, it conserves precious samples and
enables highly accurate assay miniaturization, dramatically improving
productivity.
Company Representative
Friday, 15 March 2019, 11:00Add to calendarMoving from Bulk NGS to Precision Sequencing with Single-Cell Genomics: Resolving Heterogeneity in Blood and Solid TumorsGema Fuerte, MissionBio, United KingdomHost: Vladimir BenesSmall Operon, EMBL Heidelberg
Abstract: The average read-out from conventional bulk (NGS) sequencing misses rare events and underlying genetic diversity within cell populations. To improve patient stratification, therapy selection, and disease monitoring, we need insight into clonal architecture and evolution within every single cell. The Tapestri Precision Genomics Platform enables precision DNA sequencing with sensitive and unambiguous identification of co-occurring mutations within clones that drive disease and are not observable with bulk NGS measurements. In this presentation, learn how we are now able to routinely characterize heterogeneity in both blood and solid tumors with high-throughput single-cell mutation analysis to move precision medicine forward.
Company Representative
Thursday, 11 April 2019, 15:00Add to calendarFrom single cell to answerArjan Tibbe, VyCAP, NetherlandsHost: Vladimir Benes, Malte PaulsenSmall Operon, EMBL Heidelberg
Abstract: VyCAP is a provider of technology for the isolation, identification and analysis of cells and single cells from biological fluid samples. The company designs, and manufactures innovative practical solutions for both Life Science and Clinical applications. We combine MEMS micromachining with standardized methods for cell identification and DNA, RNA and single cell protein secretion analysis.

An excellent example is our Puncher system for Single Cell Isolation. The system uses a chip that contains 6400 individual wells in an area of 8 x 8 mm2. The design of the wells only allows one single cell per well. Once a cell in one of these wells is identified and selected for isolation, the bottom of the well + the cell on that bottom, are punched towards a reaction tube or PCR or culture plate for DNA / RNA analysis or clonal expansion. The simplicity of the system combined with a Single Cell Isolation yield of over 95%, makes the Puncher system a perfect tool for everyone who is working on single cells :
that have a very low frequency of appearance, i.e. rare cell like CTC and fetal cells
from samples with only a limited number of cells, i.e. between 1 and 5000.

VyCAP is a University of Twente spin-off company that is founded by the developers of the CellSearch technology for the detection of CTC in blood of metastatic cancer patients. Its laboratories are located in Enschede, the Netherlands.

Please visit the colloquium or our website www.vycap.com for more information about our technology for single cell isolation.
Company Representative
Tuesday, 23 April 2019, 10:00Add to calendarWyatt SEC-MALS system Sebastian Wiertel, Wyatt, GermanyHost: Kim RemansRoom 13-518 a + b, EMBL Heidelberg
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Tuesday, 23 April 2019, 15:00Add to calendarDigital PCR principles, Naica System workflow and applicationsSébastien Avizou, Stilla Technologies, FranceHost: Vladimir BenesSmall Operon, EMBL Heidelberg
Company Representative
Wednesday, 8 May 2019, 15:00Add to calendarFluidFM: a single cell nanobiotechnology for injection, extraction and cell isolationPaul Monnier, Cytosurge AG, SwitzerlandHost: Rainer PepperkokRoom 13-518 a + b, EMBL Heidelberg
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Tuesday, 14 May 2019, 16:30Add to calendarAbility & psychometric testing in industry interviewsMaria Møller Jeppesen, Novo Nordisk, DenmarkHost: EICAT (PhD and Postdoctoral Programmes)Large Operon, EMBL Heidelberg
Abstract: This seminar will focus on the use of ability and psychometric testing in R&D recruitment - why pharma uses these tests, what you can expect in such an interview and in what ways you can prepare.
Company Representative
Friday, 5 July 2019, 13:00Add to calendarSpatial cell type analysis in tissue sections by next generation in situ sequencingMalte Kühnemund, CARTANA, SwedenHost: Stephanie AlexanderRoom 13-518 a + b, EMBL Heidelberg
Abstract: Spatial cell type analysis in tissue sections by next generation in situ sequencing
Single cell RNA sequencing (scRNAseq) has enabled the classification of cell types from nearly all tissue types based on their unique gene expression patterns. scRNAseq methods, however, require the isolation of cells from its natural morphological context inside the tissue losing the information of the spatial organization of cell types. A range of spatial transcriptomics techniques have been devised over the past few years, all with their unique advantages and drawbacks. In Situ Sequencing (ISS) takes place in intact morphologically preserved tissue sections and can be used to sequence short stretches of cDNA or barcodes inside ligated probes. A key advantage of ISS over other multiplexed in situ hybridization or sequencing methods is its high specificity, enabling mutation and splice variant analysis, and high throughput (10cm2 of tissue/week).
At CARTANA, we have developed an improved protocol for targeted in situ sequencing using barcode padlock probes and a new sequencing chemistry that requires less manual steps, generates higher signal/noise ratios and better preserves the tissue, making it possible to combine the ISS assay with protein staining in the same tissue section. We now apply our new ISS technology to map scRNAseq-defined cell types- and states by targeted probe panels for cell type marker genes in rodent and human brain and spinal cord samples generating cell type tissue maps.
Company Representative
Wednesday, 10 July 2019, 14:00Add to calendarNext-hour systems enabling programmable enzymatic DNA synthesisJeffrey Jeddeloh, DNA Script, SAS, FranceHost: Rainer PepperkokSmall Operon, EMBL Heidelberg
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Monday, 9 September 2019, 11:30Add to calendarCRISPR-Cas9 genome editing validation by Crystal digital PCRSebastien Avizou, STILLA Company, FranceHost: Andrea CallegariSmall Operon, EMBL Heidelberg
Tags: Cell Biology
Company Representative
Tuesday, 17 September 2019, 16:30Add to calendarFrom Single Cell Genomics to Multi-Omics to Spatial TranscriptomicsHannes Arnold, Senior Technical Sales Specialist, 10X Genomics, SwedenHost: Vladimir BenesLarge Operon, EMBL Heidelberg
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Tuesday, 17 September 2019, 17:00Add to calendarA Multidimensional View of Biology using 10x Visium Spatial Gene Expression SolutionMarlon Stoeckius, Staff Scientist R&D, 10X Genomics, SwedenHost: Vladimir BenesLarge Operon, EMBL Heidelberg
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Thursday, 17 October 2019, 10:00Add to calendarDo more. Faster. Using the Nikon A1R HD25, a large field of view confocal microscope.Klaus Nettesheim, Simone Lepper, Nikon, GermanyHost: Lucas SchuetzRoom 13-518 a + b, EMBL Heidelberg
Company Representative
Wednesday, 23 October 2019, 10:00Add to calendarA novel, label-free method for cell separation based on magnetic levitationMartin Pieprzyk, Levitas Bio, USASmall Operon, EMBL Heidelberg
Abstract: The LeviCell system is an easy-to-use platform with the ability to gently sort different populations of cells and cellular aggregates in a label-free manner using magnetic levitation. Our system harnesses intrinsic properties of different cell types and cell states (e.g. live/dead, activated/resting) to provide unique levitation properties upon exposure to a magnetic field, which enables effective sorting of heterogeneous samples without the need for antibodies or complicated sample preparation protocols. We will discuss exciting applications of this technology and how the LeviCell can potentially improve your current separation or analysis workflows.
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Wednesday, 13 November 2019, 11:00Add to calendarNew Sapphire Biomolecular Imager 2019Andreas Schroetter, Azure Biosystems, GermanyRoom 6.51 a, EMBL Heidelberg
Tags: Imaging and Image Analysis
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Monday, 18 November 2019, 11:30Add to calendarCareers talk and applying to Industry seminar from BASFMariana Ruiz Velasco Leyva and Julia Jähnigen, BASF, Ludwigshafen, GermanyHost: EMBL Fellows Career ServiceLarge Operon, EMBL Heidelberg
Abstract: This 1h15min seminar will include 2 talks. The first will be from Mariana Ruiz Velasco Leyva, a former EMBL predoc, on her transition to BASF. Mariana is now working as a computational scientist in BASF's data science and visualization team. Mariana will also be joined by Julia Jähnigen, from BASF s talent acquisition team, who will talk about the recruitment process at BASF, and her tips for applicants to industry.
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Tuesday, 21 January 2020, 15:00Add to calendar"Powering the Synthetic Biology and Genomics Revolution"Emily Leproust, TWIST, USAHost: Vladimir BenesSmall Operon, EMBL Heidelberg
Tags: Cell Biology, Gene Regulation, Systems Biology
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Tuesday, 3 March 2020, 14:30Add to calendarRNA-Seq Library Systems Lukas Paul, Jean-Baptiste Mariaux, Lexogen GmbH, Vienna, AustriaHost: Vladimir BenesSmall Operon, EMBL Heidelberg
Abstract: • CORALL RNA-Seq Libraries for whole transcriptome sequencing • QuantSeq 3´mRNA libraries for expression profiling • Nested N12 Unique Dual Index System • Solutions for small RNA-Seq
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Tuesday, 3 March 2020, 16:00Add to calendarRNA-Seq Special Applications Lukas Paul, Jean-Baptiste Mariaux, Lexogen GmbH, Vienna, AustriaHost: Vladimir BenesSmall Operon, EMBL Heidelberg
Abstract: • SLAM-Seq metabolic RNA labelling • SIRVs as spike In controls in RNA-Seq experiments • TeloPrime for full length cDNA synthesis for long-read NGS library generation