Today’s dropbox is super and I love it!

If you haven’t try this awesome service yet, follow this link https://www.getdropbox.com/referrals/NTM3NjM4ODk to register an account, which gives you extra 250MB online space. Install their client software and start syncing – you will be amazed!

Here is the link to my short video :-)
http://dl.dropbox.com/u/376388/dropbox-2yr.mov

© 2010 Endogenous - CaiLog. blogged by cail.cn - 35cd076bdd09fcbdfe7ca24eb8f93900

Related posts

• No related posts.

就根据姓名来的，汗

© 2010 Endogenous - CaiLog. blogged by cail.cn - 35cd076bdd09fcbdfe7ca24eb8f93900

Related posts

• No related posts.

My quick test was not very impressing …

Almost any software handles 3D could display surface view, change LUT, rotate, record movies, … etc. But, remember V3D is free! Other commercial ones cost a lot $ $ $ $

Until the moment I tried a right click on an objective – direct 3D pinpoint function of V3D. What’s this pinpoint function? Basically it is how you can select an objective in 3D. The method using two right-click to define one objective is “plain” and slow ~~ The method using one right-click and the mean-shift algorithm scanning over the center of mass of the projection ray to estimate the 3D location really WOW me!

As you can see from the image above, the objectives were identified pretty accurately in 3D – of course, you may say that these are nucleus and easy to identify.

Other cool features like easy handling over gigabyte data, automatic segmentation, neuron tracing … If you are working with 3D images, give it a try. It may not be your final first-choice 3D image analysis tool due to various reasons. But it will definitely re-open your eyes on how to handle 3D images. By the way, there is a toolbox of V3D for linking to matlab.

Related publication

V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets

Hanchuan Peng, Zongcai Ruan, Fuhui Long, Julie H Simpson & Eugene W Myers

Nature Biotechnology (2010) doi:10.1038/nbt.1612

Received 30 November 2009
Accepted 08 February 2010
Published online 14 March 2010

The V3D system provides three-dimensional (3D) visualization of gigabyte-sized microscopy image stacks in real time on current laptops and desktops. V3D streamlines the online analysis, measurement and proofreading of complicated image patterns by combining ergonomic functions for selecting a location in an image directly in 3D space and for displaying biological measurements, such as from fluorescent probes, using the overlaid surface objects. V3D runs on all major computer platforms and can be enhanced by software plug-ins to address specific biological problems. To demonstrate this extensibility, we built a V3D-based application, V3D-Neuron, to reconstruct complex 3D neuronal structures from high-resolution brain images. V3D-Neuron can precisely digitize the morphology of a single neuron in a fruitfly brain in minutes, with about a 17-fold improvement in reliability and tenfold savings in time compared with other neuron reconstruction tools. Using V3D-Neuron, we demonstrate the feasibility of building a 3D digital atlas of neurite tracts in the fruitfly brain.

© 2010 Endogenous - CaiLog. blogged by cail.cn - 35cd076bdd09fcbdfe7ca24eb8f93900

Related posts

• No related posts.

© 2010 Endogenous - CaiLog. blogged by cail.cn - 35cd076bdd09fcbdfe7ca24eb8f93900

Related posts

• 三国杀 入门 升级 精通 （资料收集） (0)
• 杂感若干，因为若干导致twitter的140个字包不下了 (4)
• wow, MSN live messenger is so good now (0)
• why Twitter Tool is updating -… (1)
• What’s #apple latest creation? #appleipad 苹果推出新产品iPad (2)

Thanks google!

With the keyword “cannot spawn cmd.exe”, the first hit taught me how to fix error spawning “cmd.exe” in Windows 7, which should also work for other windows versions.

Jaeger Mitchell post the fix method on Thursday, January 26, 2006 9:19 PM: the error is caused by changed Path property, which should be REG_EXPAND_SZ.

How to fix?

1. run regedit.exe
2. go to the folder of

   HKEY_LOCAL_MACHINE\SYSTEM\CurrentControlSet\Control\Session Manager\Environment

3. create a new expandable string (REG_EXPAND_SZ) called “PathX”, copy “Path” value string into “PathX”
4. delete the old “Path” and rename “PathX” to “Path”
5. reboot

© 2010 Endogenous - CaiLog. blogged by cail.cn - 35cd076bdd09fcbdfe7ca24eb8f93900

Related posts

• No related posts.

Science 12 March 2010:
Vol. 327. no. 5971, pp. 1385 – 1389
DOI: 10.1126/science.1184733

Lgr6 Marks Stem Cells in the Hair Follicle That Generate All Cell Lineages of the Skin

Hugo J. Snippert,1,* Andrea Haegebarth,1,* Maria Kasper,2 Viljar Jaks,2 Johan H. van Es,1 Nick Barker,1 Marc van de Wetering,1 Maaike van den Born,1 Harry Begthel,1 Robert G. Vries,1 Daniel E. Stange,1 Rune Toftgård,2 Hans Clevers,1

Mammalian epidermis consists of three self-renewing compartments: the hair follicle, the sebaceous gland, and the interfollicular epidermis. We generated knock-in alleles of murine Lgr6, a close relative of the Lgr5 stem cell gene. Lgr6 was expressed in the earliest embryonic hair placodes. In adult hair follicles, Lgr6+ cells resided in a previously uncharacterized region directly above the follicle bulge. They expressed none of the known bulge stem cell markers. Prenatal Lgr6+ cells established the hair follicle, sebaceous gland, and interfollicular epidermis. Postnatally, Lgr6+ cells generated sebaceous gland and interfollicular epidermis, whereas contribution to hair lineages gradually diminished with age. Adult Lgr6+ cells executed long-term wound repair, including the formation of new hair follicles. We conclude that Lgr6 marks the most primitive epidermal stem cell.
1 Hubrecht Institute–KNAW (Royal Netherlands Academy of Arts and Sciences) and University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, Netherlands.
2 Karolinska Institutet, Center for Biosciences and Department of Biosciences and Nutrition, Novum, SE-141 57 Huddinge, Sweden.

* These authors contributed equally to this work.

To whom correspondence should be addressed. E-mail: h.clevers@hubrecht.eu

Interesting points in the paper

• Both integrations create null alleles. Homozygous mice of both strains were healthy and fertile.
• Lgr6 is thus one of the earliest placode markers, resembling Sonic Hedgehog and Sox9.
• Lgr6 marked the central isthmus directly above the bulge, whereas Lgr4 expression was present in both the Lgr5+ and the Lgr6+ domains (Fig. 2B).
• The only gene in the Lgr6 profile implicated in stem cell biology and HF development was Tnfrsf19/Troy (28, 29).
• Multipotency of donor stem cells was confirmed by activating the R26R-LacZ locus in vivo 4 days before isolation. A small subset of Lgr6+ stem cells became LacZ-positive and contributed, once transplanted, to all skin lineages (Fig. 3F and fig. S6F).
• Our study identifies Lgr6 as a marker for a distinct population of stem cells giving rise to all lineages of the skin. Unlike the Lgr5 gene, we found no evidence that Lgr6 is controlled by Wnt signaling. … A picture thus emerges in which a Wnt-independent Lgr6 stem cell pool can renew sebaceous cells and seed the epidermis throughout life, whereas a Wnt-dependent Lgr5 stem cell pool derives from the Lgr6 pool early in life but then becomes relatively independent.

© 2010 Endogenous - CaiLog. blogged by cail.cn - 35cd076bdd09fcbdfe7ca24eb8f93900

Related posts

• No related posts.

You can do live-cell imaging on it.

Dev Cell. 2006 Oct;11(4):459-70.

Multicellular rosette formation links planar cell polarity to tissue morphogenesis.

Blankenship JT, Backovic ST, Sanny JS, Weitz O, Zallen JA.

Developmental Biology Program, Sloan-Kettering Institute, New York, New York 10021, USA.

Elongation of the body axis is accompanied by the assembly of a polarized cytoarchitecture that provides the basis for directional cell behavior. We find that planar polarity in the Drosophila embryo is established through a sequential enrichment of actin-myosin cables and adherens junction proteins in complementary surface domains. F-actin accumulation at AP interfaces represents the first break in planar symmetry and occurs independently of proper junctional protein distribution at DV interfaces. Polarized cells engage in a novel program of locally coordinated behavior to generate multicellular rosette structures that form and resolve in a directional fashion. Actin-myosin structures align across multiple cells during rosette formation, and adherens junction proteins assemble in a stepwise fashion during rosette resolution. Patterning genes essential for axis elongation selectively affect the frequency and directionality of rosette formation. We propose that the generation of higher-order rosette structures links local cell interactions to global tissue reorganization during morphogenesis.

PMID: 17011486

F1000 reviews

You can do chromophore-assisted laser inactivation (CALI) on it!

Nat Cell Biol. 2010 Jan;12(1):60-5; sup pp 1-9. Epub 2009 Dec 6.

An actomyosin-based barrier inhibits cell mixing at compartmental boundaries in Drosophila embryos.

Monier B, Pélissier-Monier A, Brand AH, Sanson B.

Department of Physiology, Development and Neuroscience, University of Cambridge, Downing Street, Cambridge CB2 3DY, UK. bm343@cam.ac.uk

Partitioning tissues into compartments that do not intermix is essential for the correct morphogenesis of animal embryos and organs. Several hypotheses have been proposed to explain compartmental cell sorting, mainly differential adhesion, but also regulation of the cytoskeleton or of cell proliferation. Nevertheless, the molecular and cellular mechanisms that keep cells apart at boundaries remain unclear. Here we demonstrate, in early Drosophila melanogaster embryos, that actomyosin-based barriers stop cells from invading neighbouring compartments. Our analysis shows that cells can transiently invade neighbouring compartments, especially when they divide, but are then pushed back into their compartment of origin. Actomyosin cytoskeletal components are enriched at compartmental boundaries, forming cable-like structures when the epidermis is mitotically active. When MyoII (non-muscle myosin II) function is inhibited, including locally at the cable by chromophore-assisted laser inactivation (CALI), in live embryos, dividing cells are no longer pushed back, leading to compartmental cell mixing. We propose that local regulation of actomyosin contractibility, rather than differential adhesion, is the primary mechanism sorting cells at compartmental boundaries.

PMID: 19966783

F1000 reviews

You can even use it to test the model!

Curr Biol. 2009 Dec 1;19(22):1950-5. Epub 2009 Oct 29.

Increased cell bond tension governs cell sorting at the Drosophila anteroposterior compartment boundary.

Landsberg KP, Farhadifar R, Ranft J, Umetsu D, Widmann TJ, Bittig T, Said A, Jülicher F, Dahmann C.

Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany.

Subdividing proliferating tissues into compartments is an evolutionarily conserved strategy of animal development [1-6]. Signals across boundaries between compartments can result in local expression of secreted proteins organizing growth and patterning of tissues [1-6]. Sharp and straight interfaces between compartments are crucial for stabilizing the position of such organizers and therefore for precise implementation of body plans. Maintaining boundaries in proliferating tissues requires mechanisms to counteract cell rearrangements caused by cell division; however, the nature of such mechanisms remains unclear. Here we quantitatively analyzed cell morphology and the response to the laser ablation of cell bonds in the vicinity of the anteroposterior compartment boundary in developing Drosophila wings. We found that mechanical tension is approximately 2.5-fold increased on cell bonds along this compartment boundary as compared to the remaining tissue. Cell bond tension is decreased in the presence of Y-27632 [7], an inhibitor of Rho-kinase whose main effector is Myosin II [8]. Simulations using a vertex model [9] demonstrate that a 2.5-fold increase in local cell bond tension suffices to guide the rearrangement of cells after cell division to maintain compartment boundaries. Our results provide a physical mechanism in which the local increase in Myosin II-dependent cell bond tension directs cell sorting at compartment boundaries.

PMID: 19879142

F1000 reviews

Btw, I completely lost in the vertex modeling section …

There is an obvious trend in cell biology: single cellular events to multi-cellular group activities. What do you think?

© 2010 Endogenous - CaiLog. blogged by cail.cn - 35cd076bdd09fcbdfe7ca24eb8f93900

Related posts

• No related posts.