Shreffler:Resources

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(Protocols)
(R analysis)
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*[[Image:AAAAI_rCode.R]]
*[[Image:AAAAI_rCode.R]]
** Lara's analysis script for her abstract using data file, 20080818_BaselineBasoDataWithClinicalGroups.csv. Example of 2-way ANOVA.
** Lara's analysis script for her abstract using data file, 20080818_BaselineBasoDataWithClinicalGroups.csv. Example of 2-way ANOVA.
 +
*[[Image:BasoAct_Boxplots.R]]
 +
** Lara's script to generate boxplots of the interim basophil data using data file, 20080818_BaselineBasoDataWithClinicalGroups.csv. Shows subsetting, some descriptive statistics and some manipulation of graphs.
===Shell===
===Shell===

Revision as of 08:49, 22 September 2009

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Contents

Protocols

Reading List

  1. Steinfelder S, Andersen JF, Cannons JL, Feng CG, Joshi M, Dwyer D, Caspar P, Schwartzberg PL, Sher A, and Jankovic D. . pmid:19635859. PubMed HubMed [Steinfelder]
  2. Everts B, Perona-Wright G, Smits HH, Hokke CH, van der Ham AJ, Fitzsimmons CM, Doenhoff MJ, van der Bosch J, Mohrs K, Haas H, Mohrs M, Yazdanbakhsh M, and Schramm G. . pmid:19635864. PubMed HubMed [Everts]
    two significant papers on SEA as Th2 adjuvants

  3. Suzuki K, Grigorova I, Phan TG, Kelly LM, and Cyster JG. . pmid:19506051. PubMed HubMed [Susuki]
    interesting for methods related to baso confocal project

  4. Geiger R, Duhen T, Lanzavecchia A, and Sallusto F. . pmid:19564353. PubMed HubMed [Geiger]
    another methodology paper perhaps for frequency of allergen-specific T cells

  5. Campbell JD, Buckland KF, McMillan SJ, Kearley J, Oldfield WL, Stern LJ, Grönlund H, van Hage M, Reynolds CJ, Boyton RJ, Cobbold SP, Kay AB, Altmann DM, Lloyd CM, and Larché M. . pmid:19528258. PubMed HubMed [Campbell]
    madhan's project

  6. la Sala A, He J, Laricchia-Robbio L, Gorini S, Iwasaki A, Braun M, Yap GS, Sher A, Ozato K, and Kelsall B. . pmid:19487420. PubMed HubMed [la_Sala]
    mechanisms of CT

  7. Duhen T, Geiger R, Jarrossay D, Lanzavecchia A, and Sallusto F. . pmid:19578369. PubMed HubMed [Duhen]
    characterization of a distinct Th subset producing IL-22; relevance to PN adjuvant?, second independent paper also published back-to-back

  8. Okamoto M, Van Stry M, Chung L, Koyanagi M, Sun X, Suzuki Y, Ohara O, Kitamura H, Hijikata A, Kubo M, and Bix M. . pmid:19561615. PubMed HubMed [Okamoto]
    new transcriptional regulator for Th2 described, could be useful for Th2 phenotyping

All Medline abstracts: PubMed HubMed

Scripts

R analysis

  • Image:Array flinterman.R
    • script used for Flinterman paper -- one of the first 'BATCH' functions for analysis of multiple data files
  • Image:Jax pcr.R
    • for analysis of pbmc pcr data in the JAX project -- good use of %in% and grep as well as loops to mash data together from two sources
  • Image:Milk mash script.R
    • script used by Wayne and Lara to do interim analysis of milk basophil data
  • Image:AAAAI rCode.R
    • Lara's analysis script for her abstract using data file, 20080818_BaselineBasoDataWithClinicalGroups.csv. Example of 2-way ANOVA.
  • Image:BasoAct Boxplots.R
    • Lara's script to generate boxplots of the interim basophil data using data file, 20080818_BaselineBasoDataWithClinicalGroups.csv. Shows subsetting, some descriptive statistics and some manipulation of graphs.

Shell

Perl

Courses

Personal tools