datamining

datamining in genetic/genomic research

finland Helsinki
DM in LD mapping ... haplotype association etc. PDF

PUBLICATIONS BY HANNU TOIVONEN, UNI helsinki

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datamining intro

datamining course materials from Australian national Uni,
- same as links below.
COURSE SLIDES -FROM slideshare.com

by prof Lanzi, some slides look identical to slides provided by ANU

- but generally looks good, COMPREHENSIBLE .....

DATAMINING, UNSUPERVISED RECORD LINKAGE.

Markus Hegland , australia

CHRISTEN
DATAMINING. CHALLENGES, MODELS, METHODS AND ALGORITHMS
year 2003
intro -- mainly from the standpoint of computation science.. algorithms
--
progream - FEBRL year 2008
Febrl - A Freely Available Record Linkage System with a Graphical User Interface Peter Christen Proceedings of the Australasian Workshop on Health Data and Knowledge Management (HDKM), Wollongong, January 2008.

- DISTANCE - EUCLIDEAN, PYTHAGOREAN ETC WOLFRAM MATH

ASSOCIATION RULES

- Support, confidence

Support gives total number of transaction of any particular item are occurring in datasets while confidence gives strength of a data in a dataset, we can say support is probability of A and B while confidence is conditional probability. Association rule based on these two characteristics.

-short intro

c-statistic

____?????? I would like to know whether we can calculate C-statistic using SPSS >> 13.

> If by the "c-statisitc" you are referring to the measure of the > discriminative power of the logistic equation, you can calculate it by > saving the predictive probabilities from the logistic regression > analysis and running a ROC curve with the preditive probabilities as > the "test variable." The c-statistic is the area under the curve > value.

HTH

In R/S-Plus you can just use the lrm function in the Design package or:

mean.rank <- mean(rank(x)[y == 1]) c.index <- (mean.rank - (n1 + 1)/2)/(n - n1)
(where n1 is the number of observations with y=1)
or use the somers2 function in the Hmisc package.

Frank Harrell

statistics general

Q&A by Seaman /course in psychology/

Newsom Portland UNI - handouts to course , SPSS examples

STATNOTES - WEBLECTURES. brief, explanatory, with formulas and examples of both manual calculation of basic tests and examples in SPSS.

semipartial correlation coefficient = Rsq change,,,,, semipartial = part correlation

structural equation modelling BASICS - Newsom handout

BTB - CHISQUARED

Dr Newsom has nice disclaimer on his page : "DISCLAIMER: I am not always right."

sequencing the human genome

by Venter

cf dinococcus radiodurans -

genetics statistics microarray spss

Genovese

tutorial on false discovery rate - looks comprehensible

//also see the article by authors of the method FDR /method for controlling multiple comparison problem / benjamini, hochberg from 1995

Step-by-Step Tutorial for analyzing Affymetrix expression microarraysin the R statistical environment: HELPWITHSCHOOL.COM

SPSS tutorials at texas ..

latex /superscripts/

SPSS macro basics at Raynald

SPSS datenmanagement mit SPSS googlebooks

gene set enrichment analysis editorial

random forests, self organizing maps etc.

Rodenburg

A framework to identify physiological responses in microarray-based gene expression studies: selection and interpretation of biologically relevant genes

A Bayesian Measure of the Probability of False Discovery in Genetic Epidemiology Studies
Jon Wakefield*

PLoS computational biology

Comprehensive Analysis of Affymetrix Exon Arrays Using BioConductor
Michał J. Okoniewski, Crispin J. Miller *

SPSS statistics resources

flash/audiovisual tutorials with screenshots and narrated.

wide range of topics, including advanced ones like nonlinear, segmented, robust regression,

Box-Cox transformation, contour, surface plotting and much more....

*****************Uni TEXAS

enrichment analysis - combining different sources of information

eg. gene set enrichment analysis

cf SW package GSEAP