Experiment Overview
| Repository ID: | FR-FCM-ZZ7P | Experiment name: | B-cell phenotyping healthy subjects | MIFlowCyt score: | 68.00% |
| Primary researcher: | Greg Finak | PI/manager: | Raphael Gottardo | Uploaded by: | Greg Finak |
| Experiment dates: | 2012-05-11 - 2012-05-11 | Dataset uploaded: | Sep 2013 | Last updated: | Mar 2014 |
| Keywords: | [Immunophenotyping] [flow cytometry; data analysis; statistical analysis; normalization] [healthy controls] | Manuscripts: | [24382714] |
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| Organizations: |
Fred Hutchinson Cancer Research Center, Seattle, WA (USA)
Immune Tolerance Network, Bethesda, MD, (USA) |
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| Purpose: | B-cell phenotyping panel of healthy subjects for an Immune Tolerance Network trial. This set of subjects was used here to test a novel flow cytometry data normalization algorithm. | ||||
| Conclusion: | Of the methods compared (local or global normalization, and template gating) local normalization had minimal bias and variability compared to manual gating with adjustments. | ||||
| Comments: | FCS Files were manually gated with sample-specific gate adjustments. The gates were imported from the FlowJo xml files in R / Bioconductor and applied to the data. A representative sample was selected as a template for gating, and the template gates applied to the other samples. Global and local flow data normalization algorithms were applied to the template gated data, and compared against template gating without adjustment and manual gating with sample-specific gate adjustments. | ||||
| Funding: | Not disclosed | ||||
| Quality control: | This is the control cohort for the trial. | ||||
Experiment variables
| Conditions | |
|---|---|
| · healthy control | M+T panel_750001-F02.fcs · M+T panel_750002-F03.fcs · M+T panel_750003-F02.fcs · M+T panel_750004-F02.fcs · M+T panel_750005-F03.fcs · M+T panel_750007-F03.fcs · M+T panel_750008-F02.fcs · M+T panel_750011-F02.fcs · M+T panel_902876F08.fcs · M+T panel_902877F07.fcs · M+T panel_902879F07.fcs · M+T panel_902880F07.fcs · M+T panel_902881F36.fcs · M+T panel_903975F03.fcs · M+T panel_903976F07.fcs · M+T panel_903978F03.fcs · M+T panel_904175F05.fcs · M+T panel_904176F04.fcs · M+T panel_904178F01.fcs · M+T panel_904179F07.fcs · M+T panel_904182F09.fcs · M+T panel_904183F07.fcs · M+T panel_905766F01.fcs · M+T panel_905767F01.fcs · M+T panel_905771-F01.fcs · M+T panel_905772-F01.fcs · M+T panel_905773-F01.fcs · M+T panel_905774-F01.fcs · M+T panel_905775-F01.fcs · Samples_750006-F02.fcs · Samples_750012-F02.fcs · Samples_903979F31.fcs · Samples_905768F01.fcs |
| Sample Type | |
|---|---|
| · healthy control | M+T panel_750001-F02.fcs · M+T panel_750002-F03.fcs · M+T panel_750003-F02.fcs · M+T panel_750004-F02.fcs · M+T panel_750005-F03.fcs · M+T panel_750007-F03.fcs · M+T panel_750008-F02.fcs · M+T panel_750011-F02.fcs · M+T panel_902876F08.fcs · M+T panel_902877F07.fcs · M+T panel_902879F07.fcs · M+T panel_902880F07.fcs · M+T panel_902881F36.fcs · M+T panel_903975F03.fcs · M+T panel_903976F07.fcs · M+T panel_903978F03.fcs · M+T panel_904175F05.fcs · M+T panel_904176F04.fcs · M+T panel_904178F01.fcs · M+T panel_904179F07.fcs · M+T panel_904182F09.fcs · M+T panel_904183F07.fcs · M+T panel_905766F01.fcs · M+T panel_905767F01.fcs · M+T panel_905771-F01.fcs · M+T panel_905772-F01.fcs · M+T panel_905773-F01.fcs · M+T panel_905774-F01.fcs · M+T panel_905775-F01.fcs · Samples_750006-F02.fcs · Samples_750012-F02.fcs · Samples_903979F31.fcs · Samples_905768F01.fcs |
