- FILM-Users - imperial.ac.uk

[FILM-Users 00366] Fwd: FW: PHOT Seminar, Tuesday 04 June in Blackett 630
by Martin Spitaler 31 May '13

31 May '13

...forwarded for your information, Martin * From:* Salviato, Marcia *Sent:* 29 May 2013 12:53 *To:* PHOT Aca Staff; PHOT PhD Students Yr 1; PHOT PhD Students Yr 3 & 4; PHOT PhD Students Yr 2; PHOT PDRA; PHOT Aca Visitors *Subject:* PHOT Seminar, Tuesday 04 June in Blackett 630 Dear All, Please find below details of the Photonics Seminar that will take place on Tuesday 4^th June in Blackett 630 from 1pm. *Computational and Optical Approaches to Multidimensional Live Cell Imaging* Kevin W Eliceiri, University of Wisconsin Light microscopy is providing key insights into cellular dynamics of normal and disease processes, a task being greatly facilitated by technical developments in optical probes and instrumentation. Fluorescent protein reporters allow virtually any protein to be labelled and thereby visualized in a cell, tissue or organism. Along with these developments in fluorescence probe technology, new optical techniques such as Fluorescence Resonance Energy Transfer (FRET), Multiphoton Laser-Scanning Microscopy (MPLSM), Second Harmonic Generation (SHG) imaging, Selective Plane Illumination Microscopy (SPIM) and Fluorescence Lifetime Imaging (FLIM), are revealing how individual cellular components are assembled into cytoplasmic machinery, and how this machinery functions. Our central aim is to develop hardware and software strategies for extracting all the data possible from the weak fluorescence signals that are typically obtained when observing living specimens. This involves the development and application of hardware and software for acquisition, analysis and visualization including feature extraction, exponential curve fitting, spectral unmixing and 3D visualization approaches. Much of this work is under the umbrella of our ImageJ2 software development to offer practical tools for developers and end user alike for the analysis of microscopy image data. Kind regards, Marcia ____________________________________________________________ *Marcia Salviato Direct Line: +44 (0) 207 594 7862* Deputy Group Administrator | Optics Section | Department of Physics Faculty of Natural Sciences Imperial College London Room 606, Blackett Laboratory | Prince Consort Road | London SW7 2BW Physics website: www.imperial.ac.uk/physics <http://www.imperial.ac.uk/physics> Optics website: www.imperial.ac.uk/research/optics <http://www.imperial.ac.uk/research/optics> Photonics website: _http://www.imperial.ac.uk/research/photonics_ Quantum Optics & Laser Science website: _http://www.imperial.ac.uk/research/qols_

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[FILM-Users 00365] full FILM scratch server
by Martin Spitaler 31 May '13

31 May '13

Dear microscopists, just a warning that our scratch server is almost completely full, on Monday data will be deleted to make space, starting with the oldest. Because of the large amount of data I send some warning message, but just as a reminder, don't forget that this is a purely TEMPORARY storage space, data can and will be DELETED WITHOUT NOTICE when space is needed. And please: Don't store anything else than microscopy data there: Some people have stored GBytes of Dropbox data, downloads etc. The server is big, but so are microscopy data, the server is also expensive, and it's always a struggle to keep enough space for everybody. Thanks for your cooperation, good imaging, Martin -- ------------------------------------------------------------------------ *Martin Spitaler, PhD* *FILM - Facility for Imaging by Light Microscopy* - Facility Manager - Sir Alexander Fleming Building, desk 401 Imperial College London / South Kensington Exhibition Road London SW7 2AZ UK Tel. +44-(0)20-759-42023 E-mail m.spitaler(a)imperial.ac.uk <mailto:m.spitaler@imperial.ac.uk> Website: http://imperial.ac.uk/imagingfacility

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[FILM-Users 00364] TODAY: FILM club Friday 31 May 1pm: Extracting complex information from images using Definiens Developer XD
by Martin Spitaler 31 May '13

31 May '13

...just a reminder and for clarification - this is of course today, I had forgotten to delete the 'next week' bit in yesterday's email (thank you for pointing this out)... Dear microscopists, in TODAY's FILM Club I will give an overview about the application of Definiens Developer XD for the analysis of complex microscopy data in the facility. Definiens Developer XD is a powerful software tool to extract complex information from unstructured image data, way beyond the usual thresholding and filtering approaches biologists like to use. It gives biologists easy access to a large range of advanced image analysis tools, which allows to analyse images in a similar way to visual inspection, handling challenging problems like low contrast, label-free brightfield images, high noise and background, object tracking, etc. Tools like edge detection or various noise filters help dealing with limitations of image acquisition, while the problems of false positives / negatives through strict thresholds can be overcome through fuzzy logics. Once objects are identified, a few clicks produce a wealth of results like compactness, elliptic fit, border index, position, orientation, relative distances and much more.Good imaging, In this presentation, I will give a short overview how these tools are used for the analysis of real data produced in the facility, where we have processed up to 30,000 images in one experiment. And please note that in September we are going to organise a Definiens Developer XD training course (and an Advanced course a bit later, probably in November), so if you have challenging microscopy data you need to analyse, this FILM Club should give you an idea whether this is your solution. ################################################################## FILM Club Friday 31 May, 1pm, SAFB-G120, South Kensington campus. For those who haven't been before, just walk into the Fleming building, and after the main glass entrance walk straight up the broad stairs, room G120 will be on your right-hand side. http://www3.imperial.ac.uk/imagingfacility/news#filmclub ################################################################## Martin http://www3.imperial.ac.uk/imagingfacility/equipment/licence_definiens http://developer.definiens.com/algorithms.html -- ------------------------------------------------------------------------ *Martin Spitaler, PhD* *FILM - Facility for Imaging by Light Microscopy* - Facility Manager - Sir Alexander Fleming Building, desk 401 Imperial College London / South Kensington Exhibition Road London SW7 2AZ UK Tel. +44-(0)20-759-42023 E-mail m.spitaler(a)imperial.ac.uk <mailto:m.spitaler@imperial.ac.uk> Website: http://imperial.ac.uk/imagingfacility

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[FILM-Users 00362] TOMORROW: FILM club Friday 31 May 1pm: Extracting complex information from images using Definiens Developer XD
by Martin Spitaler 30 May '13

30 May '13

Dear microscopists, in next week's FILM Club I will give an overview about the application of Definiens Developer XD for the analysis of complex microscopy data in the facility. Definiens Developer XD is a powerful software tool to extract complex information from unstructured image data, way beyond the usual thresholding and filtering approaches biologists like to use. It gives biologists easy access to a large range of advanced image analysis tools, which allows to analyse images in a similar way to visual inspection, handling challenging problems like low contrast, label-free brightfield images, high noise and background, object tracking, etc. Tools like edge detection or various noise filters help dealing with limitations of image acquisition, while the problems of false positives / negatives through strict thresholds can be overcome through fuzzy logics. Once objects are identified, a few clicks produce a wealth of results like compactness, elliptic fit, border index, position, orientation, relative distances and much more.Good imaging, In this presentation, I will give a short overview how these tools are used for the analysis of real data produced in the facility, where we have processed up to 30,000 images in one experiment. And please note that in September we are going to organise a Definiens Developer XD training course (and an Advanced course a bit later, probably in November), so if you have challenging microscopy data you need to analyse, this FILM Club should give you an idea whether this is your solution. ################################################################## FILM Club Friday 31 May, 1pm, SAFB-G120, South Kensington campus. For those who haven't been before, just walk into the Fleming building, and after the main glass entrance walk straight up the broad stairs, room G120 will be on your right-hand side. http://www3.imperial.ac.uk/imagingfacility/news#filmclub ################################################################## Martin http://www3.imperial.ac.uk/imagingfacility/equipment/licence_definiens http://developer.definiens.com/algorithms.html -- ------------------------------------------------------------------------ *Martin Spitaler, PhD* *FILM - Facility for Imaging by Light Microscopy* - Facility Manager - Sir Alexander Fleming Building, desk 401 Imperial College London / South Kensington Exhibition Road London SW7 2AZ UK Tel. +44-(0)20-759-42023 E-mail m.spitaler(a)imperial.ac.uk <mailto:m.spitaler@imperial.ac.uk> Website: http://imperial.ac.uk/imagingfacility

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[FILM-Users 00363] COMMERCIAL Fwd: Fw: MSC webcast. Using microfluidics for real-time imaging of in vitro cell models
by Martin Spitaler 30 May '13

30 May '13

...forwarded for your information, related to the upcoming demonstration in FILM, Martin -------- Original Message -------- Subject: Fw: MSC webcast. Using microfluidics for real-time imaging of in vitro cell models Date: Tue, 28 May 2013 18:48:58 +0200 From: <donald.innes(a)merckgroup.com> To: Martin Spitaler <m.spitaler(a)imperial.ac.uk> *Donald Innes* CellASIC ONIX Specialist – UK & Ireland Merck Millipore, Bioscience Division Millipore UK Ltd * Mobile: +44 (0)7778 473 754*_ __donald.innes(a)merckgroup.com_ <mailto:donald.innes@merckgroup.com>_ __www.millipore.com_ <http://www.millipore.com/?cid=BIOS-S-ESIG-1052-1302-SP> Merck Millipore is a division of Merck KGaA, Darmstadt, Germany. CellASIC™ ONIX Microfluidic Platform <http://www.millipore.com/life_sciences/flx4/cellasic_live_cell_imaging?cid=…> Text and link to Mandatory Information (in local language) Text and link to Mandatory Information (in English) ----- Forwarded by Donald Innes/MIUK/Merck on 28/05/2013 17:45 ----- Original message Nature Publishing Group continues its long standing tradition of providing the means for product manufacturers, service providers, publishers and other corporations to reach members of the scientific community who have opted-in to receive such messages. Nature Publishing Group does not endorse any of the products or services advertised here. To forward this email to a friend, please _click here_ <http://links.ealert.nature.com/servlet/FTFClickServlet?m=41609218&r=NTY2NjA…>. Custom webcast: sponsor retains sole responsibility for content *Using microfluidics for real-time imaging of /in vitro/ cell models** Date: Thursday May 30th 2013** Time: 8am PDT / 11am EDT 4pm BST / 5pm CEST Speakers: Dr Andrew Ball* EMD Millipore * Dr. KC Huang* Stanford University *_ Register for FREE_* <http://links.ealert.nature.com/ctt?kn=4&ms=NDE2MDkyMTgS1&r=NTY2NjA2NTcyOTQS…> Cell cultures, by definition, inhabit the unsteady ground between tight, reproducible experimental control and the ability to simulate the complex and dynamic environments found /in vivo/. This webcast reveals how pioneering microfluidic technology enables the precise manipulation of physiologically relevant micro-environments, helping researchers connect cellular mechanisms with phenotypes and disease states. Microfluidic cell culture chambers allow crucial parameters such as media flow, temperature and gas environment to be automated. This enables researchers to recreate the mass transport environment of tissues, elicit cell responses to dynamic solution changes and enable long-term perfusion culture – a real-time, live cell analysis with unprecedented control. The first speaker, Dr. Andrew Ball, will review a specific workflow involving microfluidic chambers used with a fluorescent microscope and image analysis software, to provide insights for live cell dynamic applications such as host-pathogen interactions, cancer cell autophagy, and cell migration in a standardized format. Then, Dr. KC Huang, will discuss how specific microfluidic techniques have allowed him to study damped oscillations of bacterial growth in response to osmotic shock. Dr. Huang will describe the advantages of real-time, live cell analysis in a microfluidic context. In this webcast you learn: • The advantages and challenges of using microfludic cell culture tools in cell biology • Techniques that can be used to develop and quantify/in vitro/ cell models for predictive cell analysis. *_Register for FREE_* <http://links.ealert.nature.com/ctt?kn=4&ms=NDE2MDkyMTgS1&r=NTY2NjA2NTcyOTQS…>* **_ _**_View our archived webcasts_* <http://links.ealert.nature.com/ctt?kn=24&ms=NDE2MDkyMTgS1&r=NTY2NjA2NTcyOTQ…>* * *#MSCwebcasts * Share: _Facebook_ <http://links.ealert.nature.com/s2s?m=41609218&r=NTY2NjA2NTcyOTQS1&rj=MTg5NT…>_LinkedIn_ <http://links.ealert.nature.com/s2s?m=41609218&r=NTY2NjA2NTcyOTQS1&rj=MTg5NT…>_Reddit_ <http://links.ealert.nature.com/s2s?m=41609218&r=NTY2NjA2NTcyOTQS1&rj=MTg5NT…>_StumbleUpon_ <http://links.ealert.nature.com/s2s?m=41609218&r=NTY2NjA2NTcyOTQS1&rj=MTg5NT…>_Twitter_ <http://links.ealert.nature.com/s2s?m=41609218&r=NTY2NjA2NTcyOTQS1&rj=MTg5NT…>_Digg_ <http://links.ealert.nature.com/s2s?m=41609218&r=NTY2NjA2NTcyOTQS1&rj=MTg5NT…> As a registered user of Nature Publishing Group's Web sites, our database indicates that you have opted-in to receive third-party emails. 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[FILM-Users 00361] COMMERCIAL Fwd: Abnova - The World's Largest Antibody Manufacturer
by Martin Spitaler 28 May '13

28 May '13

-------- Original Message -------- Subject: Abnova - The World's Largest Antibody Manufacturer Date: Tue, 28 May 2013 11:19:51 +0100 From: Caltag Medsystems <hannah(a)caltagmedsystems.co.uk> To: Martin Spitaler <m.spitaler(a)imperial.ac.uk> My document title Good Morning, I wanted to let you know that Caltag Medsystems is the UK distributor for Abnova; the world’s largest antibody manufacturer. As such, we have import facilities in place allowing hassle free delivery of reagents from the Abnova manufacturing facilities in Taiwan. We want to ensure that buying products from Abnova is straight forward. Plus, with Caltag Medsystems, you pay for UK shipping, not international courier charges. Abnova products can be viewed either at www.abnova.com <http://www.web-mailing.co.uk/mailer/lt.php?c=642&m=566&nl=21&s=39e49ed552a6…>, or on our website www.caltagmedsystems.co.uk <http://www.web-mailing.co.uk/mailer/lt.php?c=642&m=566&nl=21&s=39e49ed552a6…>, where ordering details are also listed. Currently Abnova have over 64,000 antibodies in their product range, plus thousands of proteins, SiRNAs, lysates, and ELISAs to choose from. They aim to provide at least one antibody to every expressed gene in the human genome. Many of our customers purchase more than one product. To cut the cost of multiple purchases we have developed a discount structure, shown below which is valid for use until October 2013. Just quote ‘MULTI2013’ on your order to receive the discount. Plus all orders over £1,000 qualify for free delivery. *Number of Products* *Discount Applied* 1 List Price 2-4 5% 5-7 7.5% 8-10 10% 10+ Enquire And last but not least, to celebrate the vast array of Abnova’s product portfolio we are including a science related surprise with each order. We hope you enjoy yours. Please let me know if you are looking for any reagents in particular. If you have any questions, please do not hesitate to contact me. Best wishes, Hannah Hills Abnova products are distributed in the UK by Caltag Medsystems Ltd, Whiteleaf Business Centre, 11, Little Balmer, Buckingham, MK18 1TF, UK Tel: +44 (0) 1280 827460 Fax: +44 (0) 1280 827466 E-mail: office(a)caltagmedsystems.co.uk <mailto:office@caltagmedsystems.co.uk>www.caltagmedsystems.co.uk <http://www.web-mailing.co.uk/mailer/lt.php?c=642&m=566&nl=21&s=39e49ed552a6…> *If you do not wish to receive any additional emails from Caltag Medsystems Ltd, please Click here to unsubscribe <http://www.web-mailing.co.uk/mailer/box.php?nl=21&c=642&m=566&s=39e49ed552a…>.

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[FILM-Users 00360] PS: FILM club Friday 31 May 1pm: Extracting complex information from images using Definiens Developer XD
by Martin Spitaler 24 May '13

24 May '13

PS: sorry, forgot the location: FILM Club Friday 31 May, 1pm, SAFB-G120, South Kensington campus. For those who haven't been before, just walk into the Fleming building, and after the main glass entrance walk straight up the broad stairs, room G120 will be on your right-hand side. http://www3.imperial.ac.uk/imagingfacility/news#filmclub Martin Dear microscopists, in next week's FILM Club I will give an overview about the application of Definiens Developer XD for the analysis of complex microscopy data in the facility. Definiens Developer XD is a powerful software tool to extract complex information from unstructured image data, way beyond the usual thresholding and filtering approaches biologists like to use. It gives biologists easy access to a large range of advanced image analysis tools, which allows to analyse images in a similar way to visual inspection, handling challenging problems like low contrast, label-free brightfield images, high noise and background, object tracking, etc. Tools like edge detection or various noise filters help dealing with limitations of image acquisition, while the problems of false positives / negatives through strict thresholds can be overcome through fuzzy logics. Once objects are identified, a few clicks produce a wealth of results like compactness, elliptic fit, border index, position, orientation, relative distances and much more. In this presentation, I will give a short overview how these tools are used for the analysis of real data produced in the facility, where we have processed up to 30,000 images in one experiment. And please note that in September we are going to organise a Definiens Developer XD training course (and an Advanced course a bit later, probably in November), so if you have challenging microscopy data you need to analyse, this FILM Club should give you an idea whether this is your solution. Good imaging, Martin http://www3.imperial.ac.uk/imagingfacility/equipment/licence_definiens http://developer.definiens.com/algorithms.html -- ------------------------------------------------------------------------ *Martin Spitaler, PhD* *FILM - Facility for Imaging by Light Microscopy* - Facility Manager - Sir Alexander Fleming Building, desk 401 Imperial College London / South Kensington Exhibition Road London SW7 2AZ UK Tel. +44-(0)20-759-42023 E-mail m.spitaler(a)imperial.ac.uk <mailto:m.spitaler@imperial.ac.uk> Website: http://imperial.ac.uk/imagingfacility

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[FILM-Users 00359] FILM Microscopy Day 2013 - 28 June 2013
by Martin Spitaler 24 May '13

24 May '13

Dear microscopists, we are approaching the end of the academic year, and so is this year's microscopy day, again a whole day packed with information about everything related to microscopy. Those who have attended previous years will be able to tell you that it's the best opportunity to get answers to all your questions about microscopy. And even if you have already previously, we have updated our lectures and added new topics. This year, we will also finish the day with a plenary session by an invited speaker (to be confirmed) and some drinks afterwards. After a successful start, we will also have the Microscopy Match Maker & poster session again - an excellent opportunity to form collaborations, get ideas and feedback, or just see what other people are doing. The presentations are only 3 minutes / max. 3 slides, so not much to prepare, so please make sure you put your name down (emailing to <film-service(a)imperial.ac.uk>). And PIs, please encourage your students and postdocs to participate, to show their / your research and connect with other labs. See you all there, good imaging, Martin ------------------------------------------------------------------------ FILM MICROSCOPY DAY 2013 Friday 28 June 2013 G34 ------------------------------------------------------------------------ PRELIMINARY PROGRAMME: ------------------------------------------------------------------------ Morning session *10.00-11.00 Basics of microscopy (Martin Spitaler, FILM)* magnification, properties of light, resolution, transmitted light contrast (PH, DIC, darkfield), epifluorescence, confocal microscopy *11.00-11.45 Live imaging techniques (Mark Scott, FILM) * Multiphoton, in vivo imaging, second harmonic generation (SHG), photobleaching, phototoxicity *11.45-12.00 coffee & tea break* MICROSCOPY MATCH-MAKER *12.000-13.00 Microscopy Match-Maker:* FILM users present their research performed in FILM through 3 min snapshot presentations *13.00-14.00 Poster session with sandwich lunch* Afternoon session *14.00-14.45 A walk through the zoo: Molecular imaging tools (Martin Spitaler, FILM)* FRAP, FLIP, FLIM, FRET, FCS, FUEL, BRET and more *14.45-15.30 Super-resolution microscopy (Steve Rothery, FILM) * TIRF, PALM, STORM *15.30-15.45 coffee & tea break* *15.45-16.30 Understanding images (Luis Pizarro, Computing) * basics of image data analysis, like noise removal, segmentation, tracking, registration PLENARY LECTURE *16.30-17.30 speaker tbc.* The plenary lecture will be followed by drinks and nibbles ------------------------------------------------------------------------ *Martin Spitaler, PhD* *FILM - Facility for Imaging by Light Microscopy* - Facility Manager - Sir Alexander Fleming Building, desk 401 Imperial College London / South Kensington Exhibition Road London SW7 2AZ UK Tel. +44-(0)20-759-42023 E-mail m.spitaler(a)imperial.ac.uk <mailto:m.spitaler@imperial.ac.uk> Website: http://imperial.ac.uk/imagingfacility

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[FILM-Users 00358] Fwd: Fwd: "Fluorescent Probes and Digital Imaging" - SIGN UP NOW for our newest Science webinar!
by Martin Spitaler 24 May '13

24 May '13

...forwarded for your information, Martin Begin forwarded message: > *From:* Science Webinars <sciencewebinars(a)aaas-science.org > <mailto:sciencewebinars@aaas-science.org>> > *Date:* 23 May 2013 11:01:46 BST > *To:* <T.MAGEE(a)IMPERIAL.AC.UK <mailto:T.MAGEE@IMPERIAL.AC.UK>> > *Subject:* *"Fluorescent Probes and Digital Imaging" - SIGN UP NOW for > our newest Science webinar!* > *Reply-To:* Science Webinars <reply(a)mail.aaas-science.org > <mailto:reply@mail.aaas-science.org>> > > View on mobile or on web page > <http://app.aaas-science.org/e/es.aspx?s=1906&e=49694&elq=60d1d3e7ad06407385…> > > Science Webinar Series > <http://app.aaas-science.org/e/er?s=1906&lid=19796&elq=60d1d3e7ad06407385732…> > > > New complimentary webinar from /Science/: > > *Fluorescent Probes and Digital Imaging: Where We Are and Where We're > Going* > > You are invited to hear our panel of experts on June 12, 2013, in this > live, online educational seminar. For more information and > complimentary registration visit: *webinar.sciencemag.org* > <http://app.aaas-science.org/e/er?s=1906&lid=13307&elq=60d1d3e7ad06407385732…> > > *Date: *Wednesday, June 12, 2013 > *Time: *12 p.m. Eastern, 9 a.m. Pacific, 5 p.m. UK, 6 p.m. Central > Europe > *Duration*: 1 hour > > <http://app.aaas-science.org/e/er?s=1906&lid=30649&elq=60d1d3e7ad06407385732…> > > *About This Webinar * > > The discovery of green fluorescent protein a half century ago heralded > a new and explosive era in microscopy, forever changing the landscape > for biology imaging. The ability to fuse a genetically encoded > fluorescent probe to an almost-unlimited variety of proteins has > enabled scientists to investigate signaling pathways and the movement > of intracellular proteins in living cells with unprecedented detail, > particularly when coupled with powerful widefield fluorescence and > confocal microscopy techniques. Today, using the expanded selection of > probes now available, researchers can even monitor multiple proteins > simultaneously, in real time. This webinar will investigate how > fluorescent protein probes are currently being utilized for live cell > imaging, with a focus on applications in cancer research and where > newly developed probes might take us in the near future. > > During this webinar, our panel of experts will: > - Outline the current advances in fluorescent protein probes > - Discuss how fluorescent probes are currently being used to image > intracellular processes in live cells across a range of cancer > research applications > - Investigate the potential of new probe technology such as > biosensors, photoswitchable probes, and probes emitting in the far-red > and infrared portions of the spectrum > - Answer your questions live and in real time! > > *Participants:* > > Marcel Bruchez, Ph.D. > Carnegie Mellon University > Pittsburgh, PA > > Alan Waggoner, Ph.D. > Carnegie Mellon University > Pittsburgh, PA > > Third speaker to be announced. > > *Register at:* > *webinar.sciencemag.org* > <http://app.aaas-science.org/e/er?s=1906&lid=13307&elq=60d1d3e7ad06407385732…> > > Questions? E-mail: webinar(a)aaas.org <mailto:webinar@aaas.org>. > > Produced by the /Science//AAAS Custom Publishing Office and sponsored > by Leica Microsystems. > > > > <http://app.aaas-science.org/e/er?s=1906&lid=30649&elq=60d1d3e7ad06407385732…> > > <http://app.aaas-science.org/e/er?s=1906&lid=28642&elq=60d1d3e7ad06407385732…> > > Manage Your E-mail Subscription Preferences > <http://aaas-science.org/ANTHONYMAGEE1?elqPURLPage=18&elq=60d1d3e7ad06407385…> > | Unsubscribe > <http://aaas-science.org/ANTHONYMAGEE1?elqPURLPage=18&elq=60d1d3e7ad06407385…> > Need help? Contact memuser(a)aaas.org <mailto:memuser@aaas.org> with > customer service code ELQ > > This e-mail was sent to: T.MAGEE(a)IMPERIAL.AC.UK > <mailto:T.MAGEE@IMPERIAL.AC.UK> > AAAS / /Science/ | 1200 New York Avenue NW | Washington, DC 20005 > | U.S.A. > +1 202-326-6417 | memuser(a)aaas.org <mailto:memuser@aaas.org> | > Privacy Policy > <http://www.sciencemag.org/site/help/about/privacy.xhtml?elq=60d1d3e7ad06407…> >

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[FILM-Users 00357] FILM club Friday 31 May 1pm: Extracting complex information from images using Definiens Developer XD
by Martin Spitaler 24 May '13

24 May '13

Dear microscopists, in next week's FILM Club I will give an overview about the application of Definiens Developer XD for the analysis of complex microscopy data in the facility. Definiens Developer XD is a powerful software tool to extract complex information from unstructured image data, way beyond the usual thresholding and filtering approaches biologists like to use. It gives biologists easy access to a large range of advanced image analysis tools, which allows to analyse images in a similar way to visual inspection, handling challenging problems like low contrast, label-free brightfield images, high noise and background, object tracking, etc. Tools like edge detection or various noise filters help dealing with limitations of image acquisition, while the problems of false positives / negatives through strict thresholds can be overcome through fuzzy logics. Once objects are identified, a few clicks produce a wealth of results like compactness, elliptic fit, border index, position, orientation, relative distances and much more. In this presentation, I will give a short overview how these tools are used for the analysis of real data produced in the facility, where we have processed up to 30,000 images in one experiment. And please note that in September we are going to organise a Definiens Developer XD training course (and an Advanced course a bit later, probably in November), so if you have challenging microscopy data you need to analyse, this FILM Club should give you an idea whether this is your solution. Good imaging, Martin http://www3.imperial.ac.uk/imagingfacility/equipment/licence_definiens http://developer.definiens.com/algorithms.html -- ------------------------------------------------------------------------ *Martin Spitaler, PhD* *FILM - Facility for Imaging by Light Microscopy* - Facility Manager - Sir Alexander Fleming Building, desk 401 Imperial College London / South Kensington Exhibition Road London SW7 2AZ UK Tel. +44-(0)20-759-42023 E-mail m.spitaler(a)imperial.ac.uk <mailto:m.spitaler@imperial.ac.uk> Website: http://imperial.ac.uk/imagingfacility

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