February 28, 2013  |  Announcements

The Cytobank Support Team is Ready to Help

Cytobank is a powerful software package with many features, and as such, can require some effort to master. In addition, science and the interpretation of data can be a challenge, especially in the age of advanced analysis and visualization methods such as the ones Cytobank offers. The Cytobank Support team is here to help you through this process!

Get in touch with us for any consideration, whether it is finding a button, generating the figure or statistics you need, questions on science, experimentation, and analysis, troubleshooting an error, or just to give us feedback on a feature you would like to see in Cytobank. Our team of scientists and engineers is your partner in analysis!

There are many ways to get support:

Start by searching the Help Center in the Cytobank Support Portal for articles relevant to your questions. You can also browse organized categories of articles.

If you don’t find what you need in the Support Portal, you can create a support request.

– The Cytobank Support Team

January 31, 2013  |  Announcements

New buffer compatibility data added to the BD FACSelect resource

We’ve added new datasheets to the BD FACSelect Buffer Compatibility Resource for targets involved in DNA damage (H2AX (pS139) and p53 (pS37)), apoptosis (active caspase-3 and cleaved PARP), and the cell cycle (7-AAD DNA stain). Visit this resource to see and interact with flow data showing how various antibody conjugates stain in different buffer conditions for a number of mouse and human targets.

You can learn more about FACSelect by reading our previous blog post on the topic.

BDFACSelect-Jan2013Update

Questions or comments? Email us at helpdesk@cytobank.org.

– Angela

December 31, 2012  |  Announcements

Cytobank Highlights from 2012

Dear Cytobank Community,

As 2012 draws to a close, we reflect on what on an exciting year it has been in cytometry. The benefits, uses, and applications of singe cell technologies (especially cytometry) were highlighted in various publications, including those by Bodenmiller et al and Behbehani et al using mass cytometry to profile cellular states [1, 2]. The era of high dimensional cytometry ushered by machines such as the CyTOF has enabled new explorations previously not possible. Emerging manuscripts such as these highlight a need for evolving algorithms for data analysis and visualization backed by the appropriate computation and infrastructure to handle this information. This is behind much of the vision that guides our roadmap and efforts as we launch into the new year.

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November 30, 2012  |  Announcements

Visually Annotate Plate Data to Accelerate Analysis

Researchers often choose to run data in 96- or 384-well plate format to increase the throughput of the acquisition process. The result is that it is easy to generate hundreds or thousands of files per experiment, and annotating these individually can be cumbersome. We’ve recently developed a Plate Annotator that allows users to annotate plate-associated files using a visual plate interface.

The Annotator allows users to annotate their data visually, selecting patterns of wells and applying annotations in bulk. Tagged files can then be arranged and re-arranged using standard Cytobank Illustrations tools to generate layouts of dot plots, histogram overlays, and heat maps among other visualizations.

The Plate Annotator is available on Fluidigm Cytobank and Enterprise Cytobank as a premium functionality.

Watch our demo video:

August 31, 2012  |  Announcements

Dose Response Analysis

Dose response analysis on data acquired with a single cell level of resolution can provide important insights into the behavior of specific cell subtypes that cannot be gleaned from bulk population studies. See the image below to compare dose response and EC50 values observed in bulk whole blood versus CD8+ T cells. Krutzik et al showed this in earlier work using signaling-based flow cytometry [1]. A recent article by Bodenmiller et al further demonstrates the power of dose response analysis in highly multiparametric datasets generated using mass cytometry (see Cytobank Report here) [2].

Dose Response Analysis of bulk PBMC compared to CD8+ T cells reveals the power of single cell resolution and mining data specific to subpopulations

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July 31, 2012  |  Announcements

Nolan Lab Signaling-Based Cytometry Resource

As part of educational and community outreach efforts in flow cytometry, the Nolan Lab at Stanford University has worked with the Cytobank team to launch a Signaling-Based (Fluorescence & Mass) Cytometry Resource. The Nolan lab has authored several key publications in flow cytometry on subjects including phosphoflow cytometry, barcoding, mass cytometry, and SPADE. Visit this Cytobank-powered resource to find experiment protocols for fluorescence and mass cytometry, Cytobank Reports, and Publications.

Experiment Protocols

The Experiment Protocols section of the resource links to protocols for fluorescence and mass cytometry, including those relevant to stimulations, barcoding, fix/perm methods, and titrating antibodies.

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