February 12, 2015  |  Education

Introduction to Grant Writing: Inserting Cytobank as a line item in your submission

Data retention: key to NIH policy for successful grant funding

Data sharing and preservation are central components of successfully-funded grant submissions to the NIH. Since 2003, the National Institutes of Health has maintained the NIH Data Sharing Policy and Implementation Guidance, and even released a brochure to help guide those seeking a successfully funded grant. These policies emphasize that “Data should be made as widely and freely available as possible while safeguarding the privacy of participants, and protecting confidential and proprietary data.”

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April 22, 2014  |  Education

The analysis challenges of high dimensional cytometry

With the rise in high dimensional cytometry, the need for new ways of managing and analyzing this information is essential. The Cytobank approach and platform led to several key publications in this area. As a result, we were invited to contribute a chapter published in Current Topics in Microbiology and Immunology. This chapter highlights the needs for new approaches to work with high dimensional cytometry and uses the Cytobank platform as an example of addressing the challenges. In addition, we also provide some practical ways of using algorithms such as SPADE to analyze datasets.
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August 31, 2013  |  Cytobank, Education

Cytometry for Interns II

Previously on my first blog post, I had written about the fluorescence PBMC experiment. Since then, I performed the same experiment on CyTOF. The setup of this experiment was easier due to my previous experience. However, it was my first time running the experiment on a mass cytometer. This link includes details on how the CyTOF machine works and also how data is collected.

Some of the materials were similar to those of the fluorescence experiment, including the stimulations. The protocol for the 17-parameter experiment can be found here.
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July 31, 2013  |  Cytobank, Education, Flow Cytometry

Cytometry for Interns

As a summer intern at Cytobank, the past few months have been busy and interesting to say the least. I am currently an undergraduate from the University of Redlands in Southern California. Although I have only been exposed to two years of introductory science courses, I have found that not only has it been easy to adjust to the research environment at the Nolan Lab at Stanford and the collegial atmosphere of Cytobank Inc, it has also been remarkably manageable to learn about flow cytometry.

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June 29, 2013  |  Education, Flow Cytometry

Garry Nolan Interview – Why is this single cell stuff so important?

Garry Nolan was recently interviewed by the science blog MendelsPod.com. Garry discusses the origins of his interest in single cell analysis, his lab’s work with Mass Cytometry, and moving past scientific low hanging fruit. He also discusses how his lab makes their techniques publicly available to the scientific community, and even gives his opinion on radical life extension. You can find the interview here, or you can read our summary below.

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May 15, 2013  |  Cytobank, Education

Studying single-cell signaling networks with mass cytometry: A perspective from Professor Bernd Bodenmiller

Recently, Bernd Bodenmiller from the University of Zurich gave a webcast for nature.com on using mass cytometry to study single cell signaling networks in biology and disease. The talk consisted of an introduction, an overview of the Fluidigm CyTOF instrument, a summary of Bernd’s recent paper in Nature Biotechnology, and his current work with collaborators in ovarian cancer. If you missed it, the talk is still hosted on Nature’s webcast page and is also summarized for you below.

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March 29, 2013  |  Education, Uncategorized

Data Management Discussion Panel

As you’ve probably heard from us before, the era of Big Data is here and we want to make sure you’re prepared to face the unique challenges it brings. However, we at Cytobank aren’t the only ones thinking about the implications of managing all the data being generated by high dimensional flow and mass cytometry; +Ryan Duggan via the Cytometry Google community recently hosted a Cytometry Hangout on the topic of Data Management and had a guest panel consisting of our very own Nikesh Kotecha, Kevin Krouse from labkey.org, and Wade Rogers from the University of Pennsylvania. If you didn’t happen to catch it live, below is a quick summary of the panel.

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March 29, 2013  |  Cytobank, Education

New Fluorescence and Mass Cytometry Protocols

One of our goals at Cytobank is to build community resources that facilitate cytometry experiments. This time around, we’ve updated a couple of our Resources with protocol sheets. These protocol sheets contain experimental steps linked to analysis data that you work with yourself in Cytobank. If you’re just venturing out into the realm of mass cytometry, or phospho-flow using mass or fluorescence cytometry, these resources can guide you along the way.
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