May 20, 2011  |  Announcements, Flow Cytometry

What is SPADE?

What is SPADE?

SPADE (Spanning-tree Progression Analysis of Density-normalized Events) is a way to automatically identify populations in multidimensional flow cytometry data files. SPADE clusters cells into populations and then projects them into a tree like the one shown below. SPADE works for data from both ‘classic’ fluorescence flow cytometry and mass cytometry.

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May 6, 2011  |  Announcements

A New Way to Publish Data: Cytobank Reports

We’re excited to announce Cytobank Reports, a new feature on Cytobank that will soon enable users to “publish” their data and findings. We’re also excited to announce that the first Cytobank Report (available here) features the mass cytometry study published today in Science, reporting on the simultaneous measurement of 34 parameters in single hematopoietic cells.

Also, more details to come, but stay tuned for a new resource from BD Biosciences powered by Cytobank Reports.

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April 9, 2011  |  Flow Cytometry

Cytometry in the Cloud

At Cytobank, we do cytometry in the “cloud”. What does that mean and how can that help you?

  • Surviving the Data deluge
  • Clarity, Access, and Collaboration
  • Security and Back-up

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February 25, 2011  |  Education, Flow Cytometry

Immunophenotyping Tumor-Infiltrating T cells

Dataset #4659: Testing Set – T Cell Immunophenotype (trimmed)

Quantifying the percentage of cells expressing a protein of interest is a frequent goal in both basic research and clinical studies. Paired with per-cell comparisons of the level of protein expression, this approach provides a powerful way to track and immunophenotype populations of cells present in a particular sample.

One widely recognized application of flow cytometric immunophenotyping is determining the percentage of CD4+ cells in a gated lymphocyte population in order to determine prognosis for an HIV patient. Other applications include measuring a series of markers in order to distinguish between different forms of leukemia.

In Cytobank, you can use the “percent in gate” statistic to measure and display the percentage of cells in a selected gate as compared to each active population in your figure. To illustrate with a simple example, let’s examine a sample dataset looking at the percentage of CD25+ cells in a CD3+ T cell population.

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January 25, 2011  |  Announcements

Are Your Data Safe on Cytobank?

Seeing the words “internet” and “experiment data” in the same sentence might give you pause to wonder, “Are my data safe on Cytobank?”

The answer is a resounding “Yes!”

From the minute you upload your data to Cytobank, you control the level of access that other users have to your data. By default, any data you upload are only visible to you.

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October 14, 2010  |  Announcements

The Cytobank Story

In the beginning, we wanted software that would give us a “big picture” view of our flow cytometry experiments.  We initially created a software tool to make heatmaps using flow cytometry files.  However, as we shared analyses with each other, we realized that this big picture view wasn’t enough.  We also needed to explore the single cell data to derive deeper meaning from our flow cytometry experiments.  In short, we wanted to have it both ways: we needed dynamic summaries of experiment results linked to the underlying single cell data, so that rare cell subsets and heterogeneous populations were not overlooked. More »