Nicola Green |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi This is not strictly confocal microscopy, but I hope you might be able to help still. I am interested in using the light sheet fluorescence/single plane illumination microscopy technique for imaging live 3D tissue engineered constructs. I know that Zeiss sell the Lightsheet Z1 system that does this. Has anyone had any experience with using this and can comment on it or do you know of any other similar commercially available systems? I know that many people report building their own systems but I am not thinking to go down that route at the moment. Thanks for your help Regards Nicola |
phil laissue-2 |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi Nicola, I'll get to test the Z1 at the end of the month and can let you know afterwards, also comparing it to the custom system I use. What kind of tissue do you want to look at? Kind regards Philippe _____________________________________ Philippe Laissue, PhD, Bioimaging Manager School of Biological Sciences, Room 4.17 University of Essex, Colchester CO4 3SQ, UK (0044) 01206 872246 / (0044) 07842 676 456 [hidden email] privatewww.essex.ac.uk/~plaissue On Tue, Jun 4, 2013 at 10:13 AM, Nicola Green <[hidden email]> wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Hi > This is not strictly confocal microscopy, but I hope you might be able to > help still. > I am interested in using the light sheet fluorescence/single plane > illumination microscopy technique for imaging live 3D tissue engineered > constructs. I know that Zeiss sell the Lightsheet Z1 system that does this. > Has anyone had any experience with using this and can comment on it or do > you know of any other similar commercially available systems? > I know that many people report building their own systems but I am not > thinking to go down that route at the moment. > Thanks for your help > Regards > Nicola |
George McNamara |
In reply to this post by Nicola Green
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi Nicola, LaVision Biotec sells the "Ultramicroscope". Former colleagues at UMiami told me this instrument is giving them excellent images of YFP expressing neurons (in a subset of cells) of the entire mouse brains in 3 minutes at 1 um 'resolution' (they may mean pixel size). They have improved on the Erturk ... Dodt et al recipe: 1: Ertürk A, Becker K, Jährling N, Mauch CP, Hojer CD, Egen JG, Hellal F, Bradke F, Sheng M, Dodt HU. Three-dimensional imaging of solvent-cleared organs using 3DISCO. Nat Protoc. 2012 Nov;7(11):1983-95. doi: 10.1038/nprot.2012.119. Epub 2012 Oct 11. PubMed PMID: 23060243. 2: Ertürk A, Mauch CP, Hellal F, Förstner F, Keck T, Becker K, Jährling N, Steffens H, Richter M, Hübener M, Kramer E, Kirchhoff F, Dodt HU, Bradke F. Three-dimensional imaging of the unsectioned adult spinal cord to assess axon regeneration and glial responses after injury. Nat Med. 2011 Dec 25;18(1):166-71. doi: 10.1038/nm.2600. PubMed PMID: 22198277. which they find works better than Scale. See: Luo X, Salgueiro Y, Beckerman SR, Lemmon VP, Tsoulfas P, Park KK. Three-dimensional evaluation of retinal ganglion cell axon regeneration and pathfinding in whole mouse tissue after injury. Exp Neurol. 2013 Mar 16. doi:pii: S0014-4886(13)00084-8. 10.1016/j.expneurol.2013.03.001. [Epub ahead of print] PubMed PMID: 23510761. As for focusing only on current commercial systems: big mistake. See http://www.focusonmicroscopy.org/2013/index.html for lots of activity in this field, and especially Wu and Shroff dual view isotropic 330 nm resolution (with 20x/0.8 NA lenses and clever image processing) http://www.focusonmicroscopy.org/2013/PDF/159_Shroff.pdf George On 6/4/2013 4:13 AM, Nicola Green wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Hi > This is not strictly confocal microscopy, but I hope you might be able to > help still. > I am interested in using the light sheet fluorescence/single plane > illumination microscopy technique for imaging live 3D tissue engineered > constructs. I know that Zeiss sell the Lightsheet Z1 system that does this. > Has anyone had any experience with using this and can comment on it or do > you know of any other similar commercially available systems? > I know that many people report building their own systems but I am not > thinking to go down that route at the moment. > Thanks for your help > Regards > Nicola > > -- George McNamara, Ph.D. Single Cells Analyst L.J.N. Cooper Lab University of Texas M.D. Anderson Cancer Center Houston, TX 77054 |
Johannes Schindelin |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi George & Nicola, On Tue, 4 Jun 2013, George McNamara wrote: > On 6/4/2013 4:13 AM, Nicola Green wrote: > > > > I am interested in using the light sheet fluorescence/single plane > > illumination microscopy technique for imaging live 3D tissue engineered > > constructs. I know that Zeiss sell the Lightsheet Z1 system that does this. > > Has anyone had any experience with using this and can comment on it or do > > you know of any other similar commercially available systems? > > > > I know that many people report building their own systems but I am not > > thinking to go down that route at the moment. > > [...] > > As for focusing only on current commercial systems: big mistake. > > See http://www.focusonmicroscopy.org/2013/index.html for lots of > activity in this field, and especially > > Wu and Shroff dual view isotropic 330 nm resolution (with 20x/0.8 NA lenses > and clever image processing) > > http://www.focusonmicroscopy.org/2013/PDF/159_Shroff.pdf Interesting. A (not all too) quick web search found no details about the setup, just beautiful images. I would like to point to a project I am personally involved in (together with a couple of other list regulars) and whose focus is primarily to make light-sheet microscopy accessible: http://openspim.org/. It contains a detailed parts list and instructions how to build it even if you are not an optics expert, along with fully Open Source control software. The key to the OpenSPIM is that it is an accessible platform, i.e. it can be extended and enhanced very easily. For example, I imagine that once information about Wu and Shroff's dual view setup becomes available, someone will come up with minimal modifications to the OpenSPIM setup to replicate the same results, and for maximal impact that someone could extend http://openspim.org/ (which is a Wiki) to describe those modifications so that other people can easily rebuild that setup, too. Ciao, Johannes |
Johannes Schindelin |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi, On Tue, 4 Jun 2013, Johannes Schindelin wrote: > On Tue, 4 Jun 2013, George McNamara wrote: > > > On 6/4/2013 4:13 AM, Nicola Green wrote: > > > > > > I am interested in using the light sheet fluorescence/single plane > > > illumination microscopy technique for imaging live 3D tissue > > > engineered constructs. I know that Zeiss sell the Lightsheet Z1 > > > system that does this. Has anyone had any experience with using > > > this and can comment on it or do you know of any other similar > > > commercially available systems? > > > > > > I know that many people report building their own systems but I am > > > not thinking to go down that route at the moment. > > > > [...] > > > > As for focusing only on current commercial systems: big mistake. > > > > See http://www.focusonmicroscopy.org/2013/index.html for lots of > > activity in this field, and especially > > > > Wu and Shroff dual view isotropic 330 nm resolution (with 20x/0.8 NA lenses > > and clever image processing) > > > > http://www.focusonmicroscopy.org/2013/PDF/159_Shroff.pdf > > Interesting. A (not all too) quick web search found no details about the > setup, just beautiful images. There is actually a paper which I found linked from some related NIH page describing the system: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3462167/?report=reader#!po=65.9091 In their Data Processing section, they have a link to the software hosted on Google Code which actually contains a Wiki where they describe how to rebuild their setup: http://code.google.com/p/msim/wiki/Building_your_own_MSIM I added a link to http://openspim.org/Links. Note that in the Deconvolution section of above-linked paper, it is stated that they use the Parallel Iterative Deconvolution plugin for Image, but of course they mean ImageJ. Ciao, Johannes |
Douglas Richardson |
In reply to this post by Nicola Green
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hello Nicola, Zeiss is currently the only commercial manufacturer of a Lightsheet system. We just installed the first system in North America in our facility, not sure how many have already been installed in Europe. We're very impressed with the system. Feel free to contact me off-list for more details. -Doug http://labs.mcb.harvard.edu/hcbi/ On Tue, Jun 4, 2013 at 5:13 AM, Nicola Green <[hidden email]>wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Hi > This is not strictly confocal microscopy, but I hope you might be able to > help still. > I am interested in using the light sheet fluorescence/single plane > illumination microscopy technique for imaging live 3D tissue engineered > constructs. I know that Zeiss sell the Lightsheet Z1 system that does this. > Has anyone had any experience with using this and can comment on it or do > you know of any other similar commercially available systems? > I know that many people report building their own systems but I am not > thinking to go down that route at the moment. > Thanks for your help > Regards > Nicola > |
Dr. Judith Drazba |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi all, As mentioned earlier today by George McNamara, there are two commercial manufacturers of Lightsheet systems. While the Zeiss Z1 appears to be optimized for very small living samples like zebrafish and drosophila embryos, the LaVision system does a great job on larger samples like whole mouse brain that has been cleared. I've been reviewing them both in anticipation of a purchase later this year. Judith Drazba, Ph.D. | Director | Imaging Core - LRI Cleveland Clinic, NB10 | 9500 Euclid Ave. | Cleveland, OH 44195 (216) 445-3760 | (216) 445-0515 -----Original Message----- From: Confocal Microscopy List [mailto:[hidden email]] On Behalf Of Douglas Richardson Sent: Tuesday, June 04, 2013 11:17 AM To: [hidden email] Subject: Re: Light sheet fluorescence microscopy ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hello Nicola, Zeiss is currently the only commercial manufacturer of a Lightsheet system. We just installed the first system in North America in our facility, not sure how many have already been installed in Europe. We're very impressed with the system. Feel free to contact me off-list for more details. -Doug http://labs.mcb.harvard.edu/hcbi/ On Tue, Jun 4, 2013 at 5:13 AM, Nicola Green <[hidden email]>wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Hi > This is not strictly confocal microscopy, but I hope you might be able > to help still. > I am interested in using the light sheet fluorescence/single plane > illumination microscopy technique for imaging live 3D tissue > engineered constructs. I know that Zeiss sell the Lightsheet Z1 system that does this. > Has anyone had any experience with using this and can comment on it or > do you know of any other similar commercially available systems? > I know that many people report building their own systems but I am not > thinking to go down that route at the moment. > Thanks for your help > Regards > Nicola > =================================== Please consider the environment before printing this e-mail Cleveland Clinic is ranked one of the top hospitals in America by U.S.News & World Report (2012). Visit us online at http://www.clevelandclinic.org for a complete listing of our services, staff and locations. Confidentiality Note: This message is intended for use only by the individual or entity to which it is addressed and may contain information that is privileged, confidential, and exempt from disclosure under applicable law. If the reader of this message is not the intended recipient or the employee or agent responsible for delivering the message to the intended recipient, you are hereby notified that any dissemination, distribution or copying of this communication is strictly prohibited. If you have received this communication in error, please contact the sender immediately and destroy the material in its entirety, whether electronic or hard copy. Thank you. |
Raghu Parthasarathy |
In reply to this post by Nicola Green
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** One commercial light sheet implementation that hasn't been mentioned: ASI sells the "inverted SPIM" setup that they & Hari Shroff et al. developed (www.pnas.org/cgi/doi/10.1073/pnas.1108494108): http://www.asiimaging.com/products/light-sheet-microscopy/inverted-selective-plane-illumination-microscopy-ispim/ . I haven't used any of the commercial setups; it's fun and not particularly hard to build one's own light sheet microscope. The OpenSPIM wiki noted in another reply seems quite good, by the way. best wishes, Raghu -- Raghuveer Parthasarathy [hidden email] Group: http://physics.uoregon.edu/~raghu/ Blog: http://eighteenthelephant.wordpress.com/ Associate Professor Department of Physics 1274 University of Oregon Eugene, OR 97403-1274 ________________________________ From: Nicola Green <[hidden email]> To: [hidden email] Sent: Tuesday, June 4, 2013 2:13 AM Subject: Light sheet fluorescence microscopy ***** To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi This is not strictly confocal microscopy, but I hope you might be able to help still. I am interested in using the light sheet fluorescence/single plane illumination microscopy technique for imaging live 3D tissue engineered constructs. I know that Zeiss sell the Lightsheet Z1 system that does this. Has anyone had any experience with using this and can comment on it or do you know of any other similar commercially available systems? I know that many people report building their own systems but I am not thinking to go down that route at the moment. Thanks for your help Regards Nicola |
Nuno Moreno |
In reply to this post by Douglas Richardson
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi, For micromanager and open source hardware fans please have a look at this DSLM/SPIM/OPT configuration https://sites.google.com/site/openspinmicroscopy/ Coming on nature methods (july issue) as correspondence. This system uses arduino boards and a custom build micromanager interface for dealing with sample rotation, galvo-speed, timelapse, etc, etc. Using this methodology you can setup a "spin" microscope for less than 50k euros even with topnotch camera and objective. Best, Nuno Moreno, PhD Instituto Gulbenkian de Ciência http://lnkd.in/6VXcrM On Jun 4, 2013, at 4:16 PM, Douglas Richardson wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Hello Nicola, > > Zeiss is currently the only commercial manufacturer of a Lightsheet > system. We just installed the first system in North America in our > facility, not sure how many have already been installed in Europe. We're > very impressed with the system. > > Feel free to contact me off-list for more details. > > -Doug > > http://labs.mcb.harvard.edu/hcbi/ > > > On Tue, Jun 4, 2013 at 5:13 AM, Nicola Green <[hidden email]>wrote: > >> ***** >> To join, leave or search the confocal microscopy listserv, go to: >> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy >> ***** >> >> Hi >> This is not strictly confocal microscopy, but I hope you might be able to >> help still. >> I am interested in using the light sheet fluorescence/single plane >> illumination microscopy technique for imaging live 3D tissue engineered >> constructs. I know that Zeiss sell the Lightsheet Z1 system that does this. >> Has anyone had any experience with using this and can comment on it or do >> you know of any other similar commercially available systems? >> I know that many people report building their own systems but I am not >> thinking to go down that route at the moment. >> Thanks for your help >> Regards >> Nicola >> |
Douglas Richardson |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hello All, Just wanted to apologize for my earlier post. When I stated the Z1 was the only commercial implementation of a lightsheet microscope I was just referring to the big 4 (Zeiss/Leica/Nikon/Olympus). As indicated by other posts, other commercial implementations exist. Sorry for the confusion, -Doug On Tue, Jun 4, 2013 at 12:29 PM, Nuno Moreno <[hidden email]>wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Hi, > > For micromanager and open source hardware fans please have a look at this > DSLM/SPIM/OPT configuration > > https://sites.google.com/site/openspinmicroscopy/ > > Coming on nature methods (july issue) as correspondence. > > This system uses arduino boards and a custom build micromanager interface > for dealing with sample rotation, galvo-speed, timelapse, etc, etc. Using > this methodology you can setup a "spin" microscope for less than 50k euros > even with topnotch camera and objective. > > Best, > Nuno Moreno, PhD > Instituto Gulbenkian de Ciência > http://lnkd.in/6VXcrM > > > > > > On Jun 4, 2013, at 4:16 PM, Douglas Richardson wrote: > > > ***** > > To join, leave or search the confocal microscopy listserv, go to: > > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > > ***** > > > > Hello Nicola, > > > > Zeiss is currently the only commercial manufacturer of a Lightsheet > > system. We just installed the first system in North America in our > > facility, not sure how many have already been installed in Europe. We're > > very impressed with the system. > > > > Feel free to contact me off-list for more details. > > > > -Doug > > > > http://labs.mcb.harvard.edu/hcbi/ > > > > > > On Tue, Jun 4, 2013 at 5:13 AM, Nicola Green <[hidden email] > >wrote: > > > >> ***** > >> To join, leave or search the confocal microscopy listserv, go to: > >> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > >> ***** > >> > >> Hi > >> This is not strictly confocal microscopy, but I hope you might be able > to > >> help still. > >> I am interested in using the light sheet fluorescence/single plane > >> illumination microscopy technique for imaging live 3D tissue engineered > >> constructs. I know that Zeiss sell the Lightsheet Z1 system that does > this. > >> Has anyone had any experience with using this and can comment on it or > do > >> you know of any other similar commercially available systems? > >> I know that many people report building their own systems but I am not > >> thinking to go down that route at the moment. > >> Thanks for your help > >> Regards > >> Nicola > >> > |
George McNamara |
In reply to this post by Johannes Schindelin
*****
To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi Johannes, Hari Shoff and his lab have a very good track record on making their plans and code available - see https://code.google.com/p/msim/ for details of their 2012 MSIM paper (PubMed 22581372 ). Hopefully the "instant SIM" (another FOM 2013 abstract) and dual view SPIM will be published soon (Nature Methods?) and the computational explanation will be explained and code - and program - made available. You could always email or call Hari to find out what they did for dual view SPIM to make it isotropic. George On 6/4/2013 9:25 AM, Johannes Schindelin wrote: > Hi George& Nicola, > > On Tue, 4 Jun 2013, George McNamara wrote: > > >> On 6/4/2013 4:13 AM, Nicola Green wrote: >> >>> I am interested in using the light sheet fluorescence/single plane >>> illumination microscopy technique for imaging live 3D tissue engineered >>> constructs. I know that Zeiss sell the Lightsheet Z1 system that does this. >>> Has anyone had any experience with using this and can comment on it or do >>> you know of any other similar commercially available systems? >>> >>> I know that many people report building their own systems but I am not >>> thinking to go down that route at the moment. >>> >> [...] >> >> As for focusing only on current commercial systems: big mistake. >> >> See http://www.focusonmicroscopy.org/2013/index.html for lots of >> activity in this field, and especially >> >> Wu and Shroff dual view isotropic 330 nm resolution (with 20x/0.8 NA lenses >> and clever image processing) >> >> http://www.focusonmicroscopy.org/2013/PDF/159_Shroff.pdf >> > Interesting. A (not all too) quick web search found no details about the > setup, just beautiful images. > > I would like to point to a project I am personally involved in (together > with a couple of other list regulars) and whose focus is primarily to make > light-sheet microscopy accessible: http://openspim.org/. It contains a > detailed parts list and instructions how to build it even if you are not > an optics expert, along with fully Open Source control software. > > The key to the OpenSPIM is that it is an accessible platform, i.e. it can > be extended and enhanced very easily. > > For example, I imagine that once information about Wu and Shroff's dual > view setup becomes available, someone will come up with minimal > modifications to the OpenSPIM setup to replicate the same results, and for > maximal impact that someone could extend http://openspim.org/ (which is a > Wiki) to describe those modifications so that other people can easily > rebuild that setup, too. > > Ciao, > Johannes > > -- George McNamara, Ph.D. Single Cells Analyst L.J.N. Cooper Lab University of Texas M.D. Anderson Cancer Center Houston, TX 77054 |
Johannes Schindelin |
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hi George, On Tue, 4 Jun 2013, George McNamara wrote: > Hari Shoff and his lab have a very good track record on making their plans and > code available - see > > https://code.google.com/p/msim/ > > for details of their 2012 MSIM paper (PubMed 22581372 ). Did my reply to myself not go through? I had to dig quite a bit to find that link, though. Ciao, Johannes |
phil laissue-2 |
In reply to this post by George McNamara
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To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** light sheet microscopy was a main theme at this year's FOM, great to see it take centre stage, and worth checking out several of the FOM abstracts for this. _____________________________________ Philippe Laissue, PhD, Bioimaging Manager School of Biological Sciences, Room 4.17 University of Essex, Colchester CO4 3SQ, UK (0044) 01206 872246 / (0044) 07842 676 456 [hidden email] privatewww.essex.ac.uk/~plaissue On Wed, Jun 5, 2013 at 1:19 AM, George McNamara <[hidden email]> wrote: > ***** > To join, leave or search the confocal microscopy listserv, go to: > http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy > ***** > > Hi Johannes, > > Hari Shoff and his lab have a very good track record on making their plans > and code available - see > > https://code.google.com/p/msim/ > > for details of their 2012 MSIM paper (PubMed 22581372 ). > > Hopefully the "instant SIM" (another FOM 2013 abstract) and dual view SPIM > will be published soon (Nature Methods?) and the computational explanation > will be explained and code - and program - made available. You could always > email or call Hari to find out what they did for dual view SPIM to make it > isotropic. > > George > > > > On 6/4/2013 9:25 AM, Johannes Schindelin wrote: >> >> Hi George& Nicola, >> >> On Tue, 4 Jun 2013, George McNamara wrote: >> >> >>> >>> On 6/4/2013 4:13 AM, Nicola Green wrote: >>> >>>> >>>> I am interested in using the light sheet fluorescence/single plane >>>> illumination microscopy technique for imaging live 3D tissue engineered >>>> constructs. I know that Zeiss sell the Lightsheet Z1 system that does >>>> this. >>>> Has anyone had any experience with using this and can comment on it or >>>> do >>>> you know of any other similar commercially available systems? >>>> >>>> I know that many people report building their own systems but I am not >>>> thinking to go down that route at the moment. >>>> >>> >>> [...] >>> >>> As for focusing only on current commercial systems: big mistake. >>> >>> See http://www.focusonmicroscopy.org/2013/index.html for lots of >>> activity in this field, and especially >>> >>> Wu and Shroff dual view isotropic 330 nm resolution (with 20x/0.8 NA >>> lenses >>> and clever image processing) >>> >>> http://www.focusonmicroscopy.org/2013/PDF/159_Shroff.pdf >>> >> >> Interesting. A (not all too) quick web search found no details about the >> setup, just beautiful images. >> >> I would like to point to a project I am personally involved in (together >> with a couple of other list regulars) and whose focus is primarily to make >> light-sheet microscopy accessible: http://openspim.org/. It contains a >> detailed parts list and instructions how to build it even if you are not >> an optics expert, along with fully Open Source control software. >> >> The key to the OpenSPIM is that it is an accessible platform, i.e. it can >> be extended and enhanced very easily. >> >> For example, I imagine that once information about Wu and Shroff's dual >> view setup becomes available, someone will come up with minimal >> modifications to the OpenSPIM setup to replicate the same results, and for >> maximal impact that someone could extend http://openspim.org/ (which is a >> Wiki) to describe those modifications so that other people can easily >> rebuild that setup, too. >> >> Ciao, >> Johannes >> >> > > > > -- > > > > George McNamara, Ph.D. > Single Cells Analyst > L.J.N. Cooper Lab > University of Texas M.D. Anderson Cancer Center > Houston, TX 77054 |
Peter Gabriel Pitrone |
*****
To join, leave or search the confocal microscopy listserv, go to: http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy ***** Hello Listers, I thought I would bring to your attention two correspondences in Nature Methods on light sheet microscopy... http://www.nature.com/nmeth/journal/vaop/ncurrent/index.html Have a great work week!! Pete -- Peter Gabriel Pitrone - TechRMS Microscopy/Imaging Specialist Prof. Dr. Pavel Tomancak group Max Planck Institute for Molecular Biology and Genetics Pfotenhauerstr. 108 01307 Dresden "If a straight line fit is required, obtain only two data points." - Anon. On Wed, June 5, 2013 5:08 am, phil laissue wrote: <|> ***** <|> To join, leave or search the confocal microscopy listserv, go to: <|> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy <|> ***** <|> <|> light sheet microscopy was a main theme at this year's FOM, great to <|> see it take centre stage, and worth checking out several of the FOM <|> abstracts for this. <|> _____________________________________ <|> Philippe Laissue, PhD, Bioimaging Manager <|> School of Biological Sciences, Room 4.17 <|> University of Essex, Colchester CO4 3SQ, UK <|> (0044) 01206 872246 / (0044) 07842 676 456 <|> [hidden email] <|> privatewww.essex.ac.uk/~plaissue <|> <|> <|> On Wed, Jun 5, 2013 at 1:19 AM, George McNamara <|> <[hidden email]> wrote: <|>> ***** <|>> To join, leave or search the confocal microscopy listserv, go to: <|>> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy <|>> ***** <|>> <|>> Hi Johannes, <|>> <|>> Hari Shoff and his lab have a very good track record on making their plans <|>> and code available - see <|>> <|>> https://code.google.com/p/msim/ <|>> <|>> for details of their 2012 MSIM paper (PubMed 22581372 ). <|>> <|>> Hopefully the "instant SIM" (another FOM 2013 abstract) and dual view SPIM <|>> will be published soon (Nature Methods?) and the computational explanation <|>> will be explained and code - and program - made available. You could always <|>> email or call Hari to find out what they did for dual view SPIM to make it <|>> isotropic. <|>> <|>> George <|>> <|>> <|>> <|>> On 6/4/2013 9:25 AM, Johannes Schindelin wrote: <|>>> <|>>> Hi George& Nicola, <|>>> <|>>> On Tue, 4 Jun 2013, George McNamara wrote: <|>>> <|>>> <|>>>> <|>>>> On 6/4/2013 4:13 AM, Nicola Green wrote: <|>>>> <|>>>>> <|>>>>> I am interested in using the light sheet fluorescence/single plane <|>>>>> illumination microscopy technique for imaging live 3D tissue engineered <|>>>>> constructs. I know that Zeiss sell the Lightsheet Z1 system that does <|>>>>> this. <|>>>>> Has anyone had any experience with using this and can comment on it or <|>>>>> do <|>>>>> you know of any other similar commercially available systems? <|>>>>> <|>>>>> I know that many people report building their own systems but I am not <|>>>>> thinking to go down that route at the moment. <|>>>>> <|>>>> <|>>>> [...] <|>>>> <|>>>> As for focusing only on current commercial systems: big mistake. <|>>>> <|>>>> See http://www.focusonmicroscopy.org/2013/index.html for lots of <|>>>> activity in this field, and especially <|>>>> <|>>>> Wu and Shroff dual view isotropic 330 nm resolution (with 20x/0.8 NA <|>>>> lenses <|>>>> and clever image processing) <|>>>> <|>>>> http://www.focusonmicroscopy.org/2013/PDF/159_Shroff.pdf <|>>>> <|>>> <|>>> Interesting. A (not all too) quick web search found no details about the <|>>> setup, just beautiful images. <|>>> <|>>> I would like to point to a project I am personally involved in (together <|>>> with a couple of other list regulars) and whose focus is primarily to make <|>>> light-sheet microscopy accessible: http://openspim.org/. It contains a <|>>> detailed parts list and instructions how to build it even if you are not <|>>> an optics expert, along with fully Open Source control software. <|>>> <|>>> The key to the OpenSPIM is that it is an accessible platform, i.e. it can <|>>> be extended and enhanced very easily. <|>>> <|>>> For example, I imagine that once information about Wu and Shroff's dual <|>>> view setup becomes available, someone will come up with minimal <|>>> modifications to the OpenSPIM setup to replicate the same results, and for <|>>> maximal impact that someone could extend http://openspim.org/ (which is a <|>>> Wiki) to describe those modifications so that other people can easily <|>>> rebuild that setup, too. <|>>> <|>>> Ciao, <|>>> Johannes <|>>> <|>>> <|>> <|>> <|>> <|>> -- <|>> <|>> <|>> <|>> George McNamara, Ph.D. <|>> Single Cells Analyst <|>> L.J.N. Cooper Lab <|>> University of Texas M.D. Anderson Cancer Center <|>> Houston, TX 77054 <|> |
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