Using Lomb-Scargle Periodograms to Identify Periodic Genes in ...

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Data Pipeline to Apply to Microarray Dataset1. Apply quality control checks to data2. Apply Lomb-Scargle algorithm to allexpression profiles3. Apply multiple hypothesis testing todefine “significant” periodic genes4. Analyze biological significance ofperiodic genes18
Methodology Validation Study:Bozdech’s Plasmodium datasetFrom Bozdech, et al, Fig. 1A, PLoS Biology, Vol 1, No 1, Oct 2003, p 3.Intraerythrocytic Developmental Cycle of Plasmodium falciparumCritical Assessment of Microarray Data Analysis Conference (CAMDA), Nov 2004http://research.stowers-institute.org/efg/2005/LombScargle/19
Page 1 and 2: Using Lomb-Scargle Periodogramsto I
Page 3: Periodic Patterns in BiologyA verte
Page 6 and 7: What is a Periodogram?• A graph s
Page 8 and 9: Lomb-Scargle PeriodogramExample Usi
Page 10 and 11: Lomb-Scargle PeriodogramExample Usi
Page 12 and 13: Lomb-Scargle Periodogram Experiment
Page 14 and 15: Lomb-Scargle Periodogram Experiment
Page 16 and 17: Lomb-Scargle Experiment:Mixtures: P
Page 20 and 21: Bozdech’s Plasmodium dataset:1. A
Page 30 and 31: Bozdech’s Plasmodium dataset:Boze
Page 32 and 33: Mary-Lee’s Somitogenesis DatasetW
Page 34 and 35: Somitogenesis DatasetMary-Lee, Scie
Page 36 and 37: Somitogenesis DatasetDo we care abo
Page 38 and 39: Somitogenesis DatasetPerturbation (
Page 44 and 45: Somitogenesis DatasetWhat periodici
Page 46 and 47: Conclusions• Lomb-Scargle periodo
Page 48: AcknowledgementsPourquie LabOlivier

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