Bioinformatics Research Group - University of Patras - FINDbase-PGx

Bioinformatics Research Group - University of Patras - FINDbase-PGx: "FINDbase-PGX"

pharmacogenomics database, based on published articles
- ? what information can I get from that
- allele frequencies by population, by pharmacogenomic study
- ???


check other databases by U Patras
- FINDbase
- HELPIDA - spatial epidemiology

cf checkout SOFTWARE microsoft pivot viewer, silverlight.

epidemiology, clinical trials

last observation carried forward (LOCF)- dropout
intention to treat ITT
as treated
per protocol

wiki

Publikácie

Effect of sulphonylurea treatment on glycaemic control is related to TCF7L2 genotype in patients with type 2 diabetes.
PDF - early online,Z. Schroner, M. Javorsky, R. Tkacova2, L. Klimcakova, M. Dobrikova, V. Habalova, M.Kozarova, J. Zidzik, M. Rudikova & I. Tkac.

Pubmed
This is an Accepted Article that has been peer_reviewed and approved for publication in the Diabetes, Obesity and Metabolism, but has yet to undergo copy_editing and proof correction. Please cite this article as an "Accepted Article"; doi: 10.1111/j.1463-1326.2010.01324.x 

ENDOKRINNÁ FUNKCIA TUKOVÉHO TKANIVAhttp://www.solen.sk/index.php?page=pdf_view&pdf_id=3061&magazine_id=1


http://ciselniky.dasta.mzcr.cz/cd_ds4/hypertext/AJFBZ.htm

štatistika v Exceli

http://phoenix.phys.clemson.edu/tutorials/excel/stats.html

Grubbsov test - extrémne (odľahlé) hodnoty - vysvetlenie na stránke Graphpad (EN) !!!!


Dixonov test - outliers (EN) - thread
na identifikáciu JEDNEJ odľahlej/extrémnej hodnoty v súbore
1. zoraď hodnoty podľa veľkosti
2. odľahlé (extrémne) hodnoty na hornom/dolnom konci??? príliš vysoká, príliš nízka??
koeficient (pomer) Q (rozdiel medzi "podozrivou" hodnotou a najbližšou hodnotou) / (rozsah hodnôt t.j. max - min)
3. porovnaj hodnotu pomeru s hodnotou kritickou. (ak vypočítaná hodnota Q > Q_critical tpotom danú hodnotu možno považovať za odľahlú/extrémnu)

(modifikácie dixonovho testu v závislosti od počtu subjektov v štúdii - vid Verma2006, page from Goettingen)

kritické hodnoty pre Dixonov test Verma 2006
Goettingen Grubbs et Dixon

Stats in chemistry (calibration etc). simple explanation of Grubbs test, Dixon test



educational applets  Dixon test  ( page by greeek prof)
student T test - demo + online calculator
online štatistické kalkulátory
SOCR - JAVA based
GRAPHPAD http://www.graphpad.com/quickcalcs/index.cfm

guide to statistical test interpretation graphpad prism XXX

štatistika po slovensky

základy, terminologia

pharmacogenomics, textmining

http://www.ncbi.nlm.nih.gov/pubmed/21121063?dopt=Abstract
cf related

informed consent for genomics research

informed consent for genomics research - from the National Human Genome Research institute

biobank at Karolinska Institutet


Protocol construction resources: standardized

PhenX Toolkit

OpenClinica Library - based on CDISC standard

CDISC , form builder - nice but complicated, CDE browser

CDISC is an open, multidisciplinary, non-profit organization committed to the development of industry standards to support the electronic acquisition, exchange, submission, and archiving of clinical trials data and metadata for medical and biopharmaceutical product development.

CDISC - LAB MODEL

the science, the ideas, Hillis, cancer, proteomics

cancering  proteomics
interview with Daniel Hillis
Edge website !!!

http://www.edge.org/
- interesting site, including question center, ...

long now website: perspective of 10,000 years - long term and responsible thinking

Power Calculator Tutorial

Power Calculator Tutorial: "CaTS is an interactive power calculator for genetic association studies, with features that facilitate the design of two-stage genetic association studies."

SNIPPER

SNIPPER: "SNIPPER"

program for lookup of information on SNP in public databases.

Python Development with PyDev and Eclipse - Tutorial

Python Development with PyDev and Eclipse - Tutorial: "Python Development with PyDev and Eclipse - Tutorial"

Python Package Index : Sphinx 1.0.5

Python Package Index : Sphinx 1.0.5: "Sphinx 1.0.5
Python documentation generator"

only up to version ????? 2.6

project management

SCRUM
http://www.youtube.com/watch?v=IyNPeTn8fpo&feature=channel


http://www.youtube.com/watch?v=Q5k7a9YEoUI&feature=related

R - resources, StatET Eclipse plugin for R

WalWare: StatET: "Eclipse Plug-In for R: StatET" - provides statet plugin + see tutorial!!!

material for R courses incl Rcourse by Longhow Lam XXX

intro for eclipse, R, Latex, sweave, Texclipse, Statet collected via Rbloggers


also see swik search result for R + eclipse

daily reviewer

http://thedailyreviewer.com/compsys/view/re-draw-a-normal-distribution-also-lognormal-110186774

Dietary Reference Intakes for Energy, Carbohydrate, Fiber, Fat, Fatty Acids, Cholesterol, Protein, and Amino Acids (Macronutrients) (2005)

http://www.nap.edu/openbook.php?record_id=10490&page=R1


Dietary Reference Intakes for Energy, Carbohydrate, Fiber, Fat, Fatty Acids, Cholesterol, Protein, and Amino Acids (Macronutrients) (2005)


Food and Nutrition Board (FNB)

Life as a Healthcare CIO

BLOG by health IT professional from harward ... MGH
harvard medical school 

dr halamka
operating plan - harward medical school



http://www.wikidoc.org/index.php/Main_Page

advanced graphics with R

advanced graphics with R slides

basic R, statistics

basic R slides - some useful tips, from UCLA

learning statistics R via video

R via videos , learning statistics via video

research presentation, software, "impressive", video/slides presentation

http://impressive.sourceforge.net/index.php

http://4dpiecharts.com/2010/10/29/adapting-graphs-for-presentations/


Ten (10) Easy Steps to Create an Online Program!
vcasmo.com

random numbers, R, sampling, bootstrapping

RANDOM NUMBERS - concise tutorial in R

rnorm
runif
sample


useful handout on random numbers, simulating dice roll, coin toss.
loops

cf wiki book on Statistical analysis with R

http://www.astrostatistics.psu.edu/datasets/R/Random.html

multicollinearity, mediation, suppression

 multicollinearity - excellent tutorial on causes, consequences of multicollinearity in multivariate linear regression - Uni Pensylvania

“LINEAR REGRESSION collinearity suppression xxxXX,” http://www.psych.umn.edu/faculty/waller/classes/mult10/readings/wall05.pdf. by Friedman, Wall,  Graphical Views of Suppression and Multicollinearity in

1. Multiple Linear Regression

confounding, collinearity  - examples in R XXX mcgill uni.

multicollinearity - concise introduction

wiki - multicollinearity

CAUTION WITH RULES OF THUMB - factors affecting collinearity (variance of regression coefs)
- O Brien

short one-page on multicollinearity measures: tolerance, variance inflation factor (1/tolerance) and its management

orthogonalization , factor analysis for collinearity - ppt - example from functional MRI

mediation, cf MLR, sobel test, structural equation modelling, pathway analysis....


structural collinearity  Reducing structural multicollinearity  XXX

A caution regarding rules of thumb for variance inflation factors XXX




treating multicollinearity

... one way is combining of correlated variables into one, if it makes sense  Leech eta al 2005 SPSS for intermediate statistics, p 96

cf centering

suppression  c Am. Statistician
effect of variable that is not correlated with outcome, but correlated with other predictors - it increases variance of estimates of other predictors. (Graphical views of suppression and multicollinearity in multiple linear regression.)

ICD + SNOMEDCT harmonization

ICD + SNOMEDCT harmonization WHO letter

genetic epidemiology

genetic epidemiology resources

OEGE - Online Encyclopedia for Genetic Epidemiology studies

 

Court Lab Excel spreadsheet - Hardy Weinberg equilibrium calculator XXX

iQser AG - Produkte

iQser AG - Produkte: "iQser GIN Plattform"

Gest Alta - Linked Data

Gest Alta - Linked Data: "Gest Alta - Linked Data"

» Blog Archive » SPSS GLM or Regression? When to use each

» Blog Archive » SPSS GLM or Regression? When to use each: "SPSS GLM or Regression? When to use each"

Drug Off-Target Effects Predicted Using Structural Analysis in the Context of a Metabolic Network Model

Drug Off-Target Effects Predicted Using Structural Analysis in the Context of a Metabolic Network Model

GWAS, CAD, corangiogen, resources, links

ECHOCARDIOGRAPHY VASAN 2009 JAMA

In stage 1, 16 genetic loci were associated with 5 echocardiographic traits: 1 each with LV internal dimensions and systolic dysfunction, 3 each with LV mass and wall thickness, and 8 with aortic root size. In stage 2, 5 loci replicated (6q22 locus associated with LV diastolic dimensions, explaining <1% of trait variance; 5q23, 12p12, 12q14, and 17p13 associated with aortic root size, explaining 1%-3% of trait variance).

CHARGE CONSORTIUM

prospective meta-analysis HEART FAILURE  SMITH 2010

MORTALITY Morrison 2010  (1 snp  1 genome-wide significant locus on chromosome 3p22 in an intron of CKLF-like MARVEL transmembrane domain containing 7 (CMTM7


gwas of CAD/ MI
Validation of eight genetic risk factors in East Asian populations replicated the association of BRAP with coronary artery disease.

Chromosome 9p21 polymorphism is associated with myocardial infarction but not with clinical outcome in Han Chinese.
2009

RESULTS: Patients with MI had higher frequencies of the CC genotype (30.0% vs. 20.7%) or C allele (55.5% vs. 46.2%) compared with controls (all p<0.01). rs1333049 polymorphism was strongly associated with MI [odds ratio (OR) 1.48, 95% confidence interval (CI) 1.22-1.79] after adjusting for traditional risk factors. Although longer hospitalization stay was observed in patients with the rs1333049-C allele, this polymorphism was not related to angiographic severity of CAD, LVEF, and occurrence of MACE after MI.

Significant impact of chromosomal locus 1p13.3 on serum LDL cholesterol and on angiographically characterized coronary atherosclerosis  MUENDLEIN DREXEL 2009


Mechanisms of Disease: the genetic basis of coronary heart disease kULLO 2007 Nature...

cf CHARGE
Design of the Coronary Artery Disease Genome-Wide Replication and Meta-Analysis (CARDIoGRAM) Study -- A Genome-Wide Association Meta-Analysis Involving More than 22,000 Cases and 60,000 Controls.

RGB values of common colors

RGB values of common colors  

clinical trial ontology

xxx Workshop on clinical trial ontology , 2008
- includes PPT presentations

Osteogenesis Imperfecta - Wheeless' Textbook of Orthopaedics

Osteogenesis Imperfecta - Wheeless' Textbook of Orthopaedics: "Osteogenesis Imperfecta"

Osteogenesis Imperfecta - Wheeless' Textbook of Orthopaedics

Osteogenesis Imperfecta - Wheeless' Textbook of Orthopaedics: "Osteogenesis Imperfecta"

includes radiographs

Orthopaedic - Examination of Knee Joint

Orthopaedic - Examination of Knee Joint: "to familiarize orthopaedic surgeons with the methodology required for a systematic and logical examination of the knee joint."

Physical Examination of the Shoulder — The Nicholas Institute of Sports Medicine and Athletic Trauma

Physical Examination of the Shoulder — The Nicholas Institute of Sports Medicine and Athletic Trauma: "Physical Examination of the Shoulder"

ańatomy and pictures of examination included

The Clinical Examination of the Rheumatic disease patient

The Clinical Examination of the Rheumatic disease patient: "The Clinical Examination of the
Rheumatic disease patient by drdoc on-line"

Paper: WordFreak: An Open Tool For Linguistic Annotation

Paper: WordFreak: An Open Tool For Linguistic Annotation: "WordFreak: An Open Tool For Linguistic Annotation"

The WordFreak Screenshots Homepage

The WordFreak Screenshots Homepage: "WordFreak"

general purpose annotation tools

groupware - online collaboration, web-based open source project management

http://www.cyberciti.biz/tips/open-source-project-management-software.html

egroupware

- it is opensource,
is it free? - i guess no more?

how to deploty egroupware - 2004
nice article on issues to be considered, incl. some tech for server


the free hosting possibility - but there cf security issue!!!!!

at siteground.com :____???? 4USD/month
also offers hosting of dotproject

open atrium aegir

http://blog.iautomate.ca/2009/08/open-atrium-open-source-intranet/#more-20


http://developmentseed.org/blog/2009/jul/09/rapidly-deploy-atrium-sites-aegir
-- cf AEGIR - looks as alternative to incipi.com
-- cf
PaaS - platform as a service

https://community.openatrium.com/documentation-en/node/1953

cms content management system

http://www.powerfulcms.com/cms

drupal ...

dyslipidemia BOOK

atherosclerosis - page11- Search -英文原版书-CCeBook-Original English Books: "Dyslipidemia & atherosclerosis essentials [Read excerpt]"

Chapter 3 Logistic Regression Diagnostics

Chapter 3 Logistic Regression Diagnostics: "Logistic Regression Diagnostics"

Multicollinearity in Logistic Regression

Multicollinearity in Logistic Regression: "Multicollinearity in Logistic Regression"

XXX "A MUST SEE" EPIB-677 Bayesian Analysis in Medicine

EPIB-677 Bayesian Analysis in Medicine: "Bayesian Analysis in Medicine"

ALSO OTHER VERY INSIGHTFUL STATS EPID COURSES INCL. HADNOUTS AND CODE """""!!!!!!!!!

BY Joseph Lawrence - stats epid professor at McGill uni

xxx EPIB-621 Data Analysis in the Health Sciences

EPIB-621 Data Analysis in the Health Sciences: "Data Analysis in the Health Sciences"

Multicollinearity in binary logistic regression - Statistics Help @ Talk Stats Forum

http://talkstats.com/showthread.php?t=6813: "Multicollinearity in binary logistic regression"

multicollinearity

multicollinearity - ordinary least squares regression
logistic regression

rwilliam

Multiple Tables Sweave/Latex - Stack Overflow

Multiple Tables Sweave/Latex - Stack Overflow: "Multiple Tables Sweave/Latex"

Obesity - Which Obesity Indicators Are Better Predictors of Metabolic Risk[quest]: Healthy Twin Study

Obesity - Which Obesity Indicators Are Better Predictors of Metabolic Risk[quest]: Healthy Twin Study: "Which Obesity Indicators Are Better Predictors of Metabolic Risk?: Healthy Twin Study"

spss

medcalc for comparing pairs of AUC ROC

blog on blogging GO DOWN

http://www.bloggodown.com/2010/01/25-super-firefox-addons-for-bloggers.html

https://addons.mozilla.org/en-US/firefox/addon/1730/

Regression Statistical Procedure

Regression Statistical Procedure: "ROC (Receiver Operating Characteristics) Curve is useful for evaluating and comparing the performance of classification models where the response variable is binary."

ROC curve comparison, software, statistics etc.

1. SPSS can draw line (also multiple lines for several predictors), can compute SE, 95%CI (nonparametric method), but cannot!!!! compare AUC ROC for two predictors with statistical test, (difference or lack of it can be deduced from overlap of 95%CI for the predictors beng compared, but no formal test, NO p-value!!!!).

2. methods for doing this - comparing AUC ROC of two curves (predictors), Delong 1988, Hanley 1982 ...., permutation/boostrapping CI ...

CF binormal distribution assumption.

SPSS - SE AUC ROC - two methods (options)
1. nonparametric,
2. - bi-negative exponential distribution????

*xxx* cf. Park et al 2004 Korean ..Journal - very nice intro, nonmath, but insightful what has to be done...., includes explanation on PARAMETRIC vs nonPARAMETRIC ROC estimation (smooth vs empirical), cf concept of partial AUC ROC
--- give nice and simple overview on assumptions, and when PARAMETRIC vs NONparametric methods should be used. (continuous, ordinal, skewed, sparse categories etc).


*xxx* more technical-but educational - SUGI .... tutorial on SAS macro that is able to compute p-value for difference between two AUC ROC, explaining different statistical approaches

more technical: SAS help on nonparametric comparison of two ROC curves.

the journal article reference and Rcode for three different methods of calculation of SE of AUC ROC. R forum -- (ref. Hajian-Tilaki, Hanley 2002?

Rcode for the DeLong method of AUC ROC SE estimation - nonparametric


ROCKIT by prof Metz from CHICAGO, free, downloaded, but IMHO will t ake some time to get around, to prepare input file, etc.

cf things with bootstraping, jacknifing etc, nonparametric tests.

- cf childhood predictors of young onset T2DM ... Franks et al. DIABETES 2007 = methods

CF comparison of 8 software packages for performing ROC analysis. (Stephan ClinChem 2003

medcalc by SCHOONJANS - commercial sw for cox hazard, ROC

Jane, Longton, Pepe 2009: Accommodating Covariates in ROC Analysis


ROC EXPLANATION

from Park 2004. cf Lyssenko, Meigs 2008 NEJM

One of the most popular measures is the area under
the ROC curve (AUC) (1, 2). AUC is a combined measure
of sensitivity and specificity. AUC is a measure of the
overall performance of a diagnostic test and is interpreted
as the average value of sensitivity for all possible values of
specificity (1, 2). It can take on any value between 0 and 1,
since both the x and y axes have values ranging from 0 to
1. The closer AUC is to 1, the better the overall diagnostic
performance of the test, and a test with an AUC value of 1
is one that is perfectly accurate (Fig. 2). The practical lower
limit for the AUC of a diagnostic test is 0.5. The line
segment from 0, 0 to 1, 1 has an area of 0.5 (Fig. 2). If we
were to rely on pure chance to distinguish those subjects
with versus those without a particular disease, the resulting
ROC curve would fall along this diagonal line, which is
referred to as the chance diagonal (Fig. 2) (1, 2). A diagnos-

cf values of test from 0.5 (random guess) to 1 (perfect predictor).

Comparison of data analysis packages: R, Matlab, SciPy, Excel, SAS, SPSS, Stata - Brendan O'Connor's Blog

Comparison of data analysis packages: R, Matlab, SciPy, Excel, SAS, SPSS, Stata - Brendan O'Connor's Blog: "Comparison of data analysis packages: R, Matlab, SciPy, Excel, SAS, SPSS, Stata"

Receiver Operating Characteristic (ROC) Curve: Practical Review for Radiologists

Receiver Operating Characteristic (ROC) Curve: Practical Review for Radiologists: "Receiver Operating Characteristic (ROC) Curve: Practical Review for Radiologists"

Plot ROC curve and lift chart in R « Heuristic Andrew

Plot ROC curve and lift chart in R « Heuristic Andrew: "If this programming is too much for you, try rattle (a GUI interface to R for data mining) or Weka (a machine learning suite). Otherwise, go on to the next tutorial: Compare performance of machine learning classifiers in R."

"[R] ROC curve from logistic regression"

"[R] ROC curve from logistic regression"

ROC curve comparison

methods

parametric, nonparametric

deLong, Hanley ... references included in reference.

SPSSX-L archives -- December 1999 (#254)

SPSSX-L archives -- December 1999 (#254): "Re: Meaning of ROC Curves: was Logistic Regression"

ROCKIT compare ROC AUC

Software_index: "ROCKIT also calculates the statistical significance of differences between ROC index estimates and parameters. On the basis of a 'bivariate binormal' model, it allows for comparison of 2 paired, partially paired, or unpaired datasets (which would represent, for example, different imaging modalities or diagnostic tests) with regard to:
Differences in the binormal ROC curve parameters a and b (related to the difference in the mean and of the standard deviations of the two latest normal distributions used in the fit)
Difference in the areas (Az) under the two estimated binormal ROC curves"

ROC curves comparison - comp.soft-sys.stat.spss | Google Groups

ROC curves comparison - comp.soft-sys.stat.spss Google Groups: "How can I compare two (or more) ROC curves to see if at least one of
> them is significantly different compared to the others ? I know how to
> draw a ROC curve in SPSS 15 but I do not know how to compare two
> curves to highlight significant (or insignificant) difference, by p-
> value."

MDACC Bioinfo:Public Data

MDACC Bioinfo:Public Data: "Publicly Available Data"

OpenClinica User Manual/FindingOIDs - Wikibooks, collection of open-content textbooks

OpenClinica User Manual/FindingOIDs - Wikibooks, collection of open-content textbooks: "OpenClinica User Manual/FindingOIDs"

XML EDITOR FREE - SERNA
BY SYSTEX -- CF PLONE CMS, ZOPE ???

About Texy | Texy

About Texy Texy: "About Texy"

stratified analysis, epidemiology

Rothman epidemiologybook

stratified analysis
by greenland sander.

googlebooks.

http://books.google.sk/books?id=Z3vjT9ALxHUC&pg=PA283&lpg=PA283&dq=interaction+versus+stratified+analysis&source=bl&ots=aOMKdIWH9T&sig=BvQKFnUsjzqtUO4hMImdFX0o4cQ&hl=sk&ei=RpUoTOGbNISWONSypasC&sa=X&oi=book_result&ct=result&resnum=7&ved=0CEIQ6AEwBg#v=onepage&q=interaction%20versus%20stratified%20analysis&f=false

Personalized medicine and genomics: challenges and... [Med Decis Making. 2010 May-Jun] - PubMed result

Personalized medicine and genomics: challenges and... [Med Decis Making. 2010 May-Jun] - PubMed result: "Personalized medicine and genomics: challenges and opportunities in assessing effectiveness, cost-effectiveness, and future research priorities"

R Data Analysis Examples: Logit Regression

R Data Analysis Examples: Logit Regression: "R Data Analysis Examples
Logit Regression"

centering variables

link to google books

http://books.google.sk/books?id=VtU3-y7LaLYC&pg=PA67&lpg=PA67&dq=centering+log+transformed+variables&source=bl&ots=cxvr4vpkkG&sig=A9C67EqnIkg34i_zKRiPOxdRGxI&hl=sk&ei=M4I5TKn5BMqmOI2L7YoK&sa=X&oi=book_result&ct=result&resnum=7&ved=0CD8Q6AEwBjgK#v=onepage&q=centering%20log%20transformed%20variables&f=true

Experimental design and data analysis for biologists Od autorov: Gerald Peter Quinn,Michael J. Keough

test for trend

test for trend: "How do I perform a test for linear trend of a variable that is coded as
a dummy variable in a logistic regression analysis?"

Epidemiologic Perspectives & Innovations | Full text | Trend tests for the evaluation of exposure-response relationships in epidemiological exposure studies

Epidemiologic Perspectives & Innovations Full text Trend tests for the evaluation of exposure-response relationships in epidemiological exposure studies: "Trend tests for the evaluation of exposure-response relationships in epidemiological exposure studies"

R - Generalized linear Models

R - Generalized linear Models: "5 Generalized Linear Models"

Comparison of GE Centricity electronic medical rec... [Popul Health Manag. 2010] - PubMed result

Comparison of GE Centricity electronic medical rec... [Popul Health Manag. 2010] - PubMed result: "Comparison of GE Centricity electronic medical record database and national ambulatory medical care survey findings on the prevalence of major conditions in the United States."

Information resources for epidemiologists: Textbooks

Information resources for epidemiologists: Textbooks: "Information resources for epidemiologists - textbooks and other books"

SPSS syntax to change string into numeric variable and vice versa, including a decimal or comma separator

SPSS syntax to change string into numeric variable and vice versa, including a decimal or comma separator: "Problem Subject: SPSS syntax to change string into numeric variable and vice versa, including a decimal or comma separator"

Applications, programs and R statistical functions for epidemiology

Applications, programs and R statistical functions for epidemiology: "Applications, programs and R statistical functions for epidemiology"

Search Results for INTERPRETING GRAPH DATA.ppt - Download Free Microsoft Powerpoint Documents - ZxDrive.com

Search Results for INTERPRETING GRAPH DATA.ppt - Download Free Microsoft Powerpoint Documents - ZxDrive.com

IAS Literature e-Newsletter: June 2010

IAS Literature e-Newsletter: June 2010: "International Atherosclerosis
Society Literature e-Newsletter
JUNE 2010"

Association between increasing levels of hemoglobi... [Coron Artery Dis. 2010] - PubMed result

Association between increasing levels of hemoglobi... [Coron Artery Dis. 2010] - PubMed result: "Association between increasing levels of hemoglobin A1c and coronary atherosclerosis in asymptomatic individuals without diabetes mellitus."

QMSS e-Lessons | Introduction

QMSS e-Lessons Introduction: "Welcome to the Quantitative Method in the Social Sciences e-lessons."

Čo všetko musíte voziť vo svojom aute - Pravda.sk

Čo všetko musíte voziť vo svojom aute - Pravda.sk: "Čo všetko musíte voziť vo svojom aute
Tomáš Andrejčák 15. júla 2010 8:47"

CENTERING VARIABLES REFS Linear Mixed Models: Statnotes, from North Carolina State University, Public Administration Program

Mean-Centering Does Not Alleviate Collinearity Problems in Moderated Multiple Regression Models


centering variables - collinearity in interaction terms, SAS, animation, demo

Linear Mixed Models: Statnotes, from North Carolina State University, Public Administration Program: "Centering. It is customary to center data prior to running LMM or HLM. Centering means subtracting the mean, so means become zero. Two main types of centering are group mean centering and grand mean centering. For instance, in a study of PerformanceScore, there might be a PerformanceIndividualScore at level 1 and a PerformanceAgencyScore at level 2, where the latter was a mean score for all employees in an agency. The researcher might center PerformanceIndividualScore for individuals by centering on their group (agency) means, where groups were agencies, on the theory that group performance influenced individual performance and differences from the group means should therefore be the variable of interest. Or one could center each PerformanceIndividualScore on the grand mean of all such scores across agencies. Grand mean centering is preferred over group mean centering unless there is theoretical justification for the latter."

Grand mean centering often improves the interpretability of coefficients because "0" now has a meaning (ex., 0 income is mean income, whereas before centering, 0 income might be out of the range of actual observations). Group mean centering, in contrast, changes the meaning of coefficients in complex ways which make coefficients hard to interpret, as different mean values are subtracted from different sets of raw scores. As a result, with group mean centering it is not possible to recalculate output back to raw score interpretations. In essence, one is dealing with a different variable after group mean centering. Grand mean centered income, for instance, will yield different slopes but the same deviance and residual errors as uncentered raw data. Group mean centered income does not. Group mean centered income is no longer simple income but rather measures income deviation from group means. The researcher must examine his or her theoretical model and decide if that is really what was wanted for the "income" variable. As noted by Kreft, de Leeuw, and Aiken (1995), the choice of centering must be made on a theoretical rather than statistical basis, and "centering around the group mean amounts to fitting a different model from that obtained by centering around the grand mean or by using raw scores" (p. 1). Most LMM/HLM software packages support various types of automatic centering. Centering considerations are further discussed in Burton (1993) and Hoffman & Gavin (1998).

Statistics Papers for Download

Statistics Papers for Download: "Statistics Papers for Download"

SPSS Library: Understanding contrasts

SPSS Library: Understanding contrasts: "WHAT KIND OF CONTRASTS ARE THESE?

David P. Nichols"

Organize research, collaborate & discover new knowledge | Mendeley

Organize research, collaborate & discover new knowledge Mendeley: "Organize research, collaborate, and discover new knowledge"

cf zotero
endnote
reference manager

logistic regression, linear trend test for OR

cf linear trend test for crosstabulated data - cochran armittage, mantel haenzel, linear-by-linear association

in LOGISTIC REGRESSION

cf to test linear trend (of OR) across quartiles we entered 4-level ordinal term representing medians of 4 quartiles of original continuous

cf Ridker Comparison of CRP and LDL - NEJM

Nieto

Shahar - 2000

find:
*** *** ***
books with worked example how to compute trends in OR logistic regression models

"logistic regression linear trend test Odds ratio how to" Jewell
Nicholas Jewell Statistics for epidemiology. p222
google books

***
statnotes
http://faculty.chass.ncsu.edu/garson/PA765/logistic.htm#contrasts
***
- Maxwell & Delaney "Designing Experiments and Analyzing Data" Lawrence Erlbaum Associates
cf old nabble- SPSS discussion forum

If you want to know more on polynomial contrasts, check specialised books,
like: Maxwell & Delaney "Designing Experiments and Analyzing Data" Lawrence
Erlbaum Associates. If you Google a bit using this search key: "Polynomial
contrasts logistic regression", you will se that it is widely used in
experimental research to test for linear and non linear trends.

*** ***

- selvin , statistical analysis for epidemiologic data, p228 - cf stata-"trend test after logistic regression"

google books

XXX: trend test after logistic regression.

Re: st: trend test after logistic regression.: "trend test after logistic regression"

Linear versus logistic regression when the dependent variable is a dichotomy

SpringerLink - Journal Article: "Linear versus logistic regression when the dependent variable is a dichotomy"

Choosing Statistical and Epidemiologic Methods

Choosing Statistical and Epidemiologic Methods: "Choosing a Statistical Method, with Automatic Internet Searching"

Choosing Statistical and Epidemiologic Methods

Choosing Statistical and Epidemiologic Methods: "Choosing a Statistical Method, with Automatic Internet Searching"

Improving the Presentation of Results of Logistic Regression

bulletin86_1: "Improving the Presentation of Results of Logistic Regression
with R"

Epidemiologic Perspectives & Innovations | Full text | Trend tests for the evaluation of exposure-response relationships in epidemiological exposure studies

Epidemiologic Perspectives & Innovations Full text Trend tests for the evaluation of exposure-response relationships in epidemiological exposure studies: "Trend tests for the evaluation of exposure-response relationships in epidemiological exposure studies
Ludwig A Hothorn"

Linear Trend Tests of ORs

RE: SV: Re: SV: RE: Re: st: Linear Trend Tests of ORs: "Linear Trend Tests of ORs"

Trend Tests in Epidemiology: P-Values or Confidence Intervals?. Ludwig A. Hothorn. 1999; Biometrical Journal - Wiley InterScience

Trend Tests in Epidemiology: P-Values or Confidence Intervals?. Ludwig A. Hothorn. 1999; Biometrical Journal - Wiley InterScience: "Trend Tests in Epidemiology: P-Values or Confidence Intervals?
Ludwig A. Hothorn, Prof. Dr."

Computer Code Table

Computer Code Table: "Index to computer programs"

Logistic regression

Logistic regression: "Logistic regression"

logistic regression, model fit, trend test, boook

Nicholas P. Jewell, "Statistics for Epidemiology" Chapman. xxxxxxxx



Hosmer DW, Jr, Lemeshow S. Applied logistic regression 1989:25-37 John Wiley & Sons New York. .

In all analyses, we modeled Lp(a) concentrations as quartiles to avoid the
assumption of linearity and to reduce the effects of outliers. Furthermore, we
used median Lp(a) concentrations for the categories to test for linear trends
across quartiles. We categorized the data according to the 90th, 95th, and 99th
percentiles and performed threshold analyses. We also used the test of Hosmer
and Lemeshow to evaluate the goodness of fit of the data to the models (20).

Clinical Chemistry. 2008;54:285-291.)

interaction, HOW TO , REGRESSION, XXX

http://core.ecu.edu/psyc/wuenschk/MV/MultReg/Regr-SeqMod.doc

Sequential Moderated Multiple Regression AnalysisÓ

Continuous Moderator Variables in Multiple Regression
http://core.ecu.edu/psyc/wuenschk/MV/multReg/Moderator.doc

PGS 101-INTRODUCTION TO PSYCHOLOGY

PGS 101-INTRODUCTION TO PSYCHOLOGY: "Readings in Hierarchical Linear Modeling"

learning and training Multilevel Modelling online course"

learning and training: "Multilevel Modelling online course"

interaction effects centering variables

Regression: Statnotes, from North Carolina State University, Public Administration Program: "Interaction effects are sometimes called moderator effects"

how to perform likelihood ratio test in SPSS - Hľadať v Google

how to perform likelihood ratio test in SPSS - Hľadať v Google: "Multivariate Data Analysis Using SPSS"

How to Use SPSS for Contingency Table, Relative Risk, Odds Ratio ...

How to Use SPSS for Contingency Table, Relative Risk, Odds Ratio ...

how to perform likelihood ratio test in SPSS - Hľadať v Google

how to perform likelihood ratio test in SPSS - Hľadať v Google: "More on Model Fit and Significance of Predictors with Logistic ... - 7:40 - [ Preložiť túto stránku ]
Formát súboru: Microsoft Word - HTML verzia
This is one use of the likelihood ratio test between two nested models (referrred to as “chi-square” in the SPSS logistic output). ...
www.upa.pdx.edu/IOA/newsom/da2/ho_logistic3.doc - Podobné"

An Introduction to Logistic Regression

An Introduction to Logistic Regression

by whitehead

Annotated SPSS Output: Logistic Regression

Annotated SPSS Output: Logistic Regression: "Annotated SPSS Output
Logistic Regression"

SPSS Code Fragments: A few SPSS loops for renaming variables dynamically

SPSS Code Fragments: A few SPSS loops for renaming variables dynamically: "A few SPSS loops for renaming variables dynamically"

SPSS Code Fragment: Graphing results in logistic regression

SPSS Code Fragment: Graphing results in logistic regression: "SPSS Code Fragment
Graphing results in logistic regression"

logistic regression, interaction CHASS - statnotes

Can I create interaction terms in my logistic model, as with OLS regression?
Yes. As in OLS regression, interaction terms are constructed as crossproducts of the two interacting variables.

How are interaction effects handled in logistic regression?
The same as in OLS regression. One must add interaction terms to the model as crossproducts of the standardized independents and/or dummy independents. Some computer programs will allow the researcher to specify the pairs of interacting variables and will do all the computation automatically. In SPSS, use the categorical covariates option: highlight two variables, then click on the button that shows >a*b> to put them in the Covariates box .The significance of an interaction effect is the same as for any other variable, except in the case of a set of dummy variables representing a single ordinal variable.
When an ordinal variable has been entered as a set of dummy variables, the interaction of another variable with the ordinal variable will involve multiple interaction terms. In this case the significance of the interaction of the two variables is the significance of the change of R-square of the equation with the interaction terms and the equation without the set of terms associated with the ordinal variable. (See the StatNotes section on "Regression" for computing the significance of the difference of two R-squares).


ASSUMPTIONS:
Centered variables. As in OLS regression, centering may be necessary either to reduce multicollinearity or to make interpretation of coefficients meaningful. Centering is almost alway recommended for independent variables which are components of interaction terms in a logistic model. See the full discussion in the section on OLS regression, here.

COLLINEARITY
Is multicollinearity a problem for logistic regression the way it is for multiple linear regression?
Absolutely. The discussion in "Statnotes" under the "Regression" topic is relevant to logistic regression.

What is the logistic equivalent to the VIF test for multicollinearity in OLS regression? Can odds ratios be used?
Multicollinearity is a problem when high in either logistic or OLS regression because in either case standard errors of the b coefficients will be high and interpretations of the relative importance of the independent variables will be unreliable. In an OLS regression context, recall that VIF is the reciprocal of tolerance, which is 1 - R-squared. When there is high multicollinearity, R-squared will be high also, so tolerance will be low, and thus VIF will be high. When VIF is high, the b and beta weights are unreliable and subject to misinterpretation. For typical social science research, multicollinearity is considered not a problem if VIF <= 4, a level which corresponds to doubling the standard error of the b coefficient. As there is no direct counterpart to R-squared in logistic regression, VIF cannot be computed -- though obviously one could apply the same logic to various psuedo-R-squared measures. Unfortunately, I am not aware of a VIF-type test for logistic regression, and I would think that the same obstacles would exist as for creating a true equivalent to OLS R-squared. A high odds ratio would not be evidence of multicollinearity in itself. To the extent that one independent is linearly or nonlinearly related to another independent, multicollinearity could be a problem in logistic regression since, unlike OLS regression, logistic regression does not assume linearity of relationship among independents. Some authors use the VIF test in OLS regression to screen for multicollinearity in logistic regression if nonlinearity is ruled out. In an OLS regression context, nonlinearity exists when eta-square is significantly higher than R-square. In a logistic regression context, the Box-Tidwell transformation and orthogonal polynomial contrasts are ways of testing linearity among the independents.

tabachnick fidell - eBook Downloads

tabachnick fidell - eBook Downloads: "An Introduction to Logistic Regression Analysis and Reporting
Tabachnick, B. G., & Fidell, L. S. (1996). Using multivariate statistics (3rd ed.). New York: Harper Collins. Tabachnick, B. G., & Fidell, L. S. (2001).
bit.csc.lsu.edu/~jianhua/emrah.pdf - View"

Regression Models for Count Data: Illustrations using Longitudinal Predictors of Childhood Injury -- Karazsia and van Dulmen 33 (10): 1076 -- Journal of Pediatric Psychology

Regression Models for Count Data: Illustrations using Longitudinal Predictors of Childhood Injury -- Karazsia and van Dulmen 33 (10): 1076 -- Journal of Pediatric Psychology: "Regression Models for Count Data: Illustrations using Longitudinal Predictors of Childhood Injury*"

logistic regression interaction testing how to - Hľadať v Google

logistic regression interaction testing how to - Hľadať v Google: "Testing and Interpreting Mediational and Moderational Models in ... - [ Preložiť túto stránku ]
Formát súboru: Microsoft Powerpoint - HTML verzia
Testing interactions in logistic regression is similar to OLS regression methods, in that one includes an interaction term in the model predicting a binary ..."

King: xxxx
http://faculty.washington.edu/kingkm/Logistic%20Regression/mediation%20in%20logistic.ppt

nonparametric logistic regression - Hľadať v Google

nonparametric logistic regression - Hľadať v Google: "Nonparametric simple regression: smoothing scatterplots - Výsledky kníh Google"

Statistics with R

Statistics with R: "using the statistical environment R"

FAQ: A comparison of different tests for trend

trend test in logistic regression ??? cf Nieto 2000 Sleep apnea health hypertension study

cf cochrane-armittage test for linear trend in genotypes (genetic association testing)

nice explanation - as how some statistical tests are something we now, but have new names. ...... at the same time a bit confusing.


FAQ: A comparison of different tests for trend: "Does Stata provide a test for trend?"

logistic regression resources

1. binary logistic regression - Rodriguez. Available at: http://data.princeton.edu/wws509/notes/c3.pdf [Cit Júl 3, 2010].

general statistical text, but on authors webpage u can find examples how to perform analysis in R statistical software. !!!!!

2. Categorical Data: Part 6: Logistic Regression. Available at: http://www.math.yorku.ca/SCS/Courses/grcat/grc6.html [Cit Júl 3, 2010]. / for SAS , but general concepts very intuitive //

3. log linear model - zrozumiteľné - Rodriguez. Available at: http://data.princeton.edu/wws509/notes/c5.pdf [Cit Júl 3, 2010].

1. linear models - rodriguez - zrozumiteľne! Available at: http://data.princeton.edu/wws509/notes/c2.pdf [Cit Júl 3, 2010].

generalized linear model, R

http://data.princeton.edu/R/glms.html

Odds ratio - Wikipedia, the free encyclopedia

Odds ratio - Wikipedia, the free encyclopedia: "Odds ratio"

FAQ: How do I interpret odds ratios in logistic regression?

FAQ: How do I interpret odds ratios in logistic regression?: "FAQ: How do I interpret odds ratios in logistic regression?"

Stata FAQ: How do I interpret odds ratios in logistic regression?

Stata FAQ: How do I interpret odds ratios in logistic regression?: "How do I interpret odds ratios in logistic regression?"

Video: RSS in Plain English

YouTube - Video: RSS in Plain English: "Video: RSS in Plain English"


check this out- way of presentation!!!!! excelent. also down to the point. !!!!

Role of Aldosterone and Angiotensin II in Insulin Resistance: Abstract and Introduction

Role of Aldosterone and Angiotensin II in Insulin Resistance: Abstract and Introduction: "Role of Aldosterone and Angiotensin II in Insulin Resistance: An Update"

Hyperglycemic Crises in Adult Patients With Diabetes: Introduction

Hyperglycemic Crises in Adult Patients With Diabetes: Introduction: "Hyperglycemic Crises in Adult Patients With Diabetes"

Review of Dr. RA DeFronzo's work

Review of Dr. RA DeFronzo's work: "Dr. RA Defronzo
Status: Laboratory Head"

InCirculation.net - NSAID induced coronary risk, genetics

InCirculation.net - cardiovascular medicine resources, cardiology information, news, guidelines: "Am J Cardiol 2010; 105: 1740–1745"

InCirculation.net - NSAID induced coronary risk, genetics

InCirculation.net - cardiovascular medicine resources, cardiology information, news, guidelines: "Gene variants may influence NSAID-induced coronary risk

18 June 2010

MedWire News: Variants in the prostaglandin-endoperoxide synthase-1 (PTGS1) and C-reactive protein (CRP) genes may influence the risk for acute coronary events associated with non-steroidal antiinflammatory drugs (NSAID), Canadian researchers believe.

However, they admit that their findings, which appear in the American Journal of Cardiology, are preliminary and require confirmation in larger cohorts."

XXXXXXXXXXClinical Research & Clinical Trials

Clinical Research & Clinical Trials: "What is clinical research?"

Clinical Research Regulatory Information

Clinical Research Regulatory Information: "Clinical Research Regulatory Information"

XXXXXX Steps involved in clinical research efforts

Steps involved in clinical research efforts: "Steps involved in clinical research efforts"

BioMed Central | Clinical Trials

BioMed Central Clinical Trials: "Clinical trials and BioMed Central"

CEBM > Centre for Evidence-Based Medicine in Oxford in

CEBM > Home: "Welcome to the web site of the Centre for Evidence-Based Medicine in Oxford in the UK."

Publishing study protocols: making them visible will improve registration, reporting and recruitment

BioMed Central Full text Publishing study protocols: making them visible will improve registration, reporting and recruitment: "Publishing study protocols: making them visible will improve registration, reporting and recruitment"

The CONSORT Group > CONSORT Statement > Overview

The CONSORT Group > CONSORT Statement > Overview: "The CONSORT Statement is intended to improve the reporting of a randomized controlled trial (RCT), enabling readers to understand a trial's design, conduct, analysis and interpretation, and to assess the validity of its results. It emphasizes that this can only be achieved through complete transparency from authors."

Emerging Themes in Epidemiology | Full text | Testing bias in clinical databases: methodological considerations

Emerging Themes in Epidemiology Full text Testing bias in clinical databases: methodological considerations: "Testing bias in clinical databases: methodological considerations"

The new CONSORT statement -- Antes 340: c1432 -- BMJ

The new CONSORT statement -- Antes 340: c1432 -- BMJ: "The new CONSORT statement
The guidance is clear, but awareness and endorsement are lagging behind"

BioMed Central || When Failure Should Be the Option

BioMed Central Full text When Failure Should Be the Option: "When failure should be the option"

about possible yield from failed phase II studies

- drugs found ineffective, but safe

? maybe more effective for other target, other disease """"!!!!!

european clinical trial EUDRACT

"EudraCT Supporting Documentation"

DECLARATION OF HELSINKI

Office of Human Subjects Research: "WORLD MEDICAL ASSOCIATION DECLARATION OF HELSINKI
Ethical Principles for Medical Research Involving Human Subjects
Adopted by the 18th WMA General Assembly, Helsinki, Finland, June 1964, and amended by the
29th WMA General Assembly, Tokyo, Japan, October 1975
35th WMA General Assembly, Venice, Italy, October 1983
41st WMA General Assembly, Hong Kong, September 1989
48th WMA General Assembly, Somerset West, Republic of South Africa, October 1996
and the 52nd WMA General Assembly, Edinburgh, Scotland, October 2000
Note of Clarification on Paragraph 29 added by the WMA General Assembly, Washington 2002 Note of Clarification on Paragraph 30 added by the WMA General Assembly, Tokyo 2004"

FDA: Guidances, Information Sheets, and Notices

Guidances, Information Sheets, and Notices: "Guidances, Information Sheets, and Notices"

Journal of Translational Medicine | Full text | Translational Medicine: A two-way road

Journal of Translational Medicine Full text Translational Medicine: A two-way road: "Translational Medicine: A two-way road"

Understanding Clinical Trials - ClinicalTrials.gov

Understanding Clinical Trials - ClinicalTrials.gov: "Understanding Clinical Trials"


IFPMA Representing the R&D pharmaceutical industry
http://clinicaltrials.ifpma.org/clinicaltrials/index.php?id=134&L=0&w=diabetes&s=true&isHomeLink=true


Nagoya Protocol on Access to Genetic Resources and the Fair and Equitable Sharing of Benefits Arising from their Utilization to the Convention on Biological Diversity

challenges to new devices access

"Introduction: Challenges to New Device Access: An Overview of Issues"

comparative effectiveness

NEJM -- Disclosure of Financial Relationships to Participants in Clinical Research

NEJM -- Disclosure of Financial Relationships to Participants in Clinical Research: "Disclosure of Financial Relationships to Participants in Clinical Research"

exportation of clinical research

"The Dilemma of Outsourcing Clinical Research"

v

Translational Medicine: A two-way road

Journal of Translational Medicine Full text Translational Medicine: A two-way road: "Translational Medicine: A two-way road"

set, powerset, combinations, permutations

http://www.tushar-mehta.com/excel/tips/powerset.html

cochrane handbook

http://www.cochrane-handbook.org/

OpenClinical.org

clinical knowledge management for healthcare

OPENCLINICAL.ORG

relevant books, white papers, regulations ...

Psychological Tests and Test Interpretation Tools

Psychological Tests and Test Interpretation Tools: "I have created a suite of over 25 repeatable tests. For now, none of them have been normed but they can be used for cognitive rehabilitation and qualitative assessment. The suite includes tests of attention, long-term and working memory, reasoning, reaction time, executive functions and visual-spatial processing.

This is available upon request.

SPSS Syntax"

Enzmann_Software

Enzmann_Software: "Dirk Enzmann - Statistical Software (Some Useful Things)
Below you find some small executables, SPSS macros, EXCEL-templates, R functions (see: http://www.r-project.org/) and Stata ado-files I wrote for special calculations in statistical analyses. The executable programs are written in Pascal 7.0 and run under Windows (3.x, 9x, NT4, XP). The files can be downloaded and spread without further permisson under the condition that they remain unchanged. They have been tested as virus free. The author is not liable to any damages caused by their use. Comments on improvements are welcome"

Interaction between two continuous variables - PsychWiki - A Collaborative Psychology Wiki

Interaction between two continuous variables - PsychWiki - A Collaborative Psychology Wiki: "Interaction between two continuous variables
From PsychWiki - A Collaborative Psychology Wiki
Jump to: navigation, search
Statistical programs, like SPSS, do not always have 'point-and-click' commands for every possible statistical test. This page is a description of how to test the interaction between two continuous variables. Two approaches are described below:
(1) three steps to conduct the interaction using commands within SPSS, and
(2) Interaction! software by Daniel S. Soper that performs statistical analysis and graphics for interactions between dichotomous, categorical, and continuous variables."

citation, refererence management, online

check out.

biomedexperts

http://www.biomedexperts.com/Profile.bme/497839/Per-Henrik_Groop

citeuLike (SPRINGER)
connotea
delicious
SCOPUS

OCT identifies additional vulnerable lesions in post-AMI patients

OCT identifies additional vulnerable lesions in post-AMI patients: "OCT finds additional at-risk lesions in AMI patients
January 29, 2010 Shelley Wood
Wakayama, Japan - In one of the first studies to use optical coherence tomography (OCT) imaging to compare plaque vulnerability in different groups of at-risk subjects, Dr Takashi Kubo (Wakayama Medical University, Japan) and colleagues say they can identify important differences in the plaques of AMI patients and of patients with stable angina [1]. Investigators also found that plaques that met the definition of thin-cap fibroatheroma (TCFA), as well as thinner fibrous caps generally, were more common in the AMI patients than in the stable-angina subjects and that this was true not just of the infarct-related lesions, but also of the noninfarct lesions."

Diagnostic yield of angiography

Diagnostic yield of angiography: "ongoing National Institutes of Health-sponsored Prospective Imaging Study for Evaluation of Chest Pain (PROMISE), comparing CT angiography with functional stress testing in 10 000 patients, will provide important insights into how CT can be used to better risk-stratify this population."

NEJM PATEL 2010 xxxxxx

Eprotirome with statin therapy

Eprotirome with statin therapy: "Eprotirome further reduces cholesterol levels in statin-treated patients
March 10, 2010
Download slides
Baltimore, MD - Adding the investigational thyroid hormone analog eprotirome (Karo Bio) to statin therapy in patients with dyslipidemia results in substantially further reductions in LDL cholesterol and other lipid and lipoprotein levels, a new study shows [1]. The improvements in the atherogenic profile occurred without adversely affecting the heart or skeletal system, two common side effects of thyroid hormone analogs, report investigators."

Weight, blood pressure, and dietary benefits after... [J Med Internet Res. 2008] - PubMed result

Weight, blood pressure, and dietary benefits after... [J Med Internet Res. 2008] - PubMed result: "Weight, blood pressure, and dietary benefits after 12 months of a Web-based Nutrition Education Program (DASH for health): longitudinal observational study."

ESC | Congresses | EuroPRevent 2010 | Slides resources | Slides resources

ESC Congresses EuroPRevent 2010 Slides resources Slides resources: "Slides resources
Europrevent 2010"

RIZIKOVÝ PROFIL A OČAKÁVANÝ PRÍNOS FARMAKOLOGICKEJ LIEČBY U NOVODIAGNOSTIKOVANÝCH DIABETIKOV 2. TYPU

SAMEDI: "Interná medicína 2005 / 9
RIZIKOVÝ PROFIL A OČAKÁVANÝ PRÍNOS FARMAKOLOGICKEJ LIEČBY U NOVODIAGNOSTIKOVANÝCH DIABETIKOV 2. TYPU
Ivan Tkáč, Lucia Baldaufová"

Interná medicína 2005 / 9
RIZIKOVÝ PROFIL A OČAKÁVANÝ PRÍNOS FARMAKOLOGICKEJ LIEČBY U NOVODIAGNOSTIKOVANÝCH DIABETIKOV 2. TYPU
Ivan Tkáč, Lucia Baldaufová

Pacienti s diabetes mellitus 2. typu majú zvýšené riziko rozvoja kardiovaskulárnych ochorení už v čase stanovenia diagnózy diabetu. V súbore 1471 novodiagnostikovaných diabetikov 2. typu sme analyzovali spektrum rizikových faktorov aterosklerózy. Priemerné hodnoty glykovaného hemoglobínu (GHb) pri stanovení diagnózy diabetu boli 8,4 %, priemerné hladiny LDL cholesterolu boli 3,4 mmol/l a priemerné hodnoty krvného tlaku boli 140/84 mmHg. V čase stanovenia diagnózy cukrovky malo 74 % diabetikov hladinu GHb >7,5 %, 87 % diabetikov malo hladinu LDL cholesterolu > 2,5 mmol/l a 64 % diabetikov malo hodnoty systolického tlaku krvi (STK) > 130 mmHg. Za použitia kalkulátora rizika UKPDS Risk Engine bolo vypočítané absolútne 10-ročné riziko rozvoja ICHS u mužov s novozisteným diabetom 23,1 %, zatiaľ čo u žien bolo toto riziko 14,4 %. Ak by boli u pacientov dosiahnuté cieľové hladiny GHb, LDL cholesterolu a STK, potom by sa vypočítané riziko rozvoja ICHS u oboch pohlaví znížilo o vyše 40 % a riziko kardiovaskulárnej mortality by sa znížilo až na polovicu. Uvedené fakty svedčia a vysokej rizikovosti pacientov s novodiagnostikovaným diabetom 2. typu a o vysokom preventívnom potenciáli intervencií zameraných na liečbu hyperglykémie, hypercholesterolémie a hypertenzie. Kľúčové slová: diabetes mellitus 2. typu, rizikové faktory aterosklerózy, dyslipidémia, hypertenzia

RISK PROFILE AND ANTICIPATED BENEFIT OF PHARMACOLOGICAL TREATMENT IN PATIENTS WITH NEWLY DIAGNOSED TYPE 2 DIABETES

The patients with type 2 diabetes have an increased risk of cardiovascular disease even in the time when the diagnosis of diabetes is established. We have analysed atherosclerosis risk factor profile in a group of 1471 newly diagnosed patients with type 2 diabetes. Mean glycated haemoglobin (GHb) at the time of diagnosis was 8,4 %, mean LDL cholesterol level was 3,4 mmol/l, and mean blood pressure was 140/84 mmHg. At the time of diagnosis of diabetes 74 % of diabetic patients had GHb level >7,5 %, 87 % of patients had LDL cholesterol level > 2,5 mmol/l, and 64 % of diabetic patients had systolic blood pressure above 130 mmHg. Using the UKPDS Risk Engine calculated 10-year absolute risk of coronary heart disease in men with newly diagnosed type 2 diabetes is 23,1 %, while in women it is 14,4 %. If target GHb, LDL cholesterol and systolic blood pressure values were achieved, then calculated risk of coronary disease in both genders would decrease by more than 40 % and the risk of fatal cardiovascular disease would be reduced by one half. These facts indicate high risk of patients with newly diagnosed type 2 diabetes and show also high preventive potential of treatments focused on high blood glucose, cholesterol and blood pressure levels. Key words: type 2 diabetes mellitus, atherosclerosis risk factors, dyslipidaemia, hypertension

Interná med. 2005; 5 (9): 473-477

prednášky - bioštatistika, úvod do vedecko výskumnej činnosti

EXCELENT resource for PhD students (SLOVAK)

BY KISH, lead by Dr Andrea Madarasová Gecková, including insightful lectures by Dr. Jaro Rosenberger

*X* Multiple Regression with Categorical Predictor Variables - Text

Multiple Regression with Categorical Predictor Variables - Text: "ANOVA is a special case of linear regression when the variables have been dummy coded."

excelent example, worked example in SPSS

dummy variables, worked example

example, dummy variables

ANOVA, definitions of related terms

ANOVA two way

regression vs ANOVA, qualitative, independent variables, dummy variables

regression vs ANOVA

QUALITATIVE Independent variables vs DUMMY VARIABLES PDF.

12 PAGES , syntax, examples from SPSS

Multivariate Statistics - Categorical Variables

Multivariate Statistics - Categorical Variables: "Part VII: Multiple Regression (MR)
Using Categorical Variables in MR"

*x* Examples: Linear Models with Dummy Variables, R

Statistics 5102 (Geyer, Spring 2010) Examples: Linear Models with Dummy Variables: "Categorical Predictors and Dummy Variables
The subject of this web page is linear models in which some or all of the predictors are categorical. Special cases are called ANOVA and ANCOVA.
In principle, there is no problem. The model matrix is allowed to be any function whatsoever of the predictor variables (covariates).
In practice, we need to explain the most commonly used way in which the model matrix is made to depend on categorical covariates."

How large of SE is too large?

Epidemiology and Beyond: How large of SE is too large?: "Rules of Thumb: How large of SE is too large?"

SE = STANDARD ERROR

Epidemiology and Beyond Public Accessible Research Data

Epidemiology and Beyond: "Public Accessible Research Data"

Epidemiology and Beyond: stats freeware

Epidemiology and Beyond: "My Favorite Statistic and Math Freeware"

Open Atrium vs BaseCamp project management

Manage Your Projects With Open Atrium Idealware: "Manage Your Projects With Open Atrium
By Steve Backman, August 2009
I’m trying out Open Atrium. http://openatrium.com/ Now in first beta, Open Atrium from Development Seed consolidates powerful project management features to Drupal in a modern, polished format.

When we first started bearing down on Drupal two years ago, about the first thing we wanted to do manage independent projects on our own www.dbdes.com site. We got reasonably far, with the ability to define clients, projects, tasks and organize blog-like discussion and documents for each. Given the state of the art two years ago in Drupal and our own priorities, we eventually shelved it in favor of a generally positive relationship with Basecamp (http://www.basecamphq.com). Meanwhile, many of our Drupal sites required one or another set of Intranet features, and each one got delivered in customized, one-off ways."

Medrio: EDC Overnight cf Open clinica

Medrio: EDC Overnight: "Medrio provides electronic data capture (EDC) software with unique capabilities: study managers configure Medrio directly without reliance on software programmers. The result is a vast improvement in:
Speed: study online in as little as 1 day
Cost: low monthly subscription per study
Simplicity: automated reports and statistics
Medrio supports phase I-IV trials, outcomes research, registries, retrospective chart reviews, and other clinical and animal health studies where these advantages are most important, all within a secure regulatory compliant environment."

open atrium calendar, features

"Open Atrium allows you to share events and meetings with your team, using the calendar feature. To enable the calendar in your group you have to add the calendar as a feature."

pdf - opena atrium features

CEBM > EBM Tools > Overview

CEBM > EBM Tools > Overview: "Tools for each step of the EBM process"

TrustTheEvidence.net - what we are about | TrustTheEvidence.net

TrustTheEvidence.net - what we are about TrustTheEvidence.net: "Trusttheevidence.net was formed by two friends who first met at Medical School in Oxford. During PhDs at the OXVASC research programme, they revisited their shared interest in health research and its impact on clinical care. The ideas for this blog were first mooted over a few pints of ale in the public houses of the golden triangle (see Google map below). Research that matters should be transmitted to and understood by a wider audience. We feel this is a neglected area."

CEBM > Training & Education > CEBM Workshop Videos > Dr Carl Heneghan #2

CEBM > Training & Education > CEBM Workshop Videos > Dr Carl Heneghan #2: "Dr Carl Heneghan - Diagnostic Tests #2"

JavaScript Kit- Content Management scripts

JavaScript Kit- Content Management scripts: "A 'plug and play' script that makes your regular HTML tables sortable! Click on the table headers, and the column that follows is sorted either in descending or ascending order. Easy to install, and functions in IE5+ and NS6+."

EuroRec: - ARGOS

EuroRec: European Institute for Health Records - ARGOS: "The overall goal of the ARGOS eHealth Pilot Project is to contribute to establishing a “Transatlantic Observatory for Meeting Global Health Policy Challenges through ICT-Enabled Solutions” in order to develop and promote “Common Methods for Responding to Global eHealth Challenges in the EU and the US”. EU and US care about the global challenges because (a) citizens travel and migrate globally and there is a wish to foster good healthcare everywhere (b) the EU and US wish to refine their products to better penetrate global markets (c) experiences and lessons learned globally are useful in Europe and the US."

EuroRec: European Institute for Health Records - News

EuroRec: European Institute for Health Records - News: "The ICT 2010 conference will take place in Brussels on 27-29 September 2010. ICT 2010 is organised by the European Commission and hosted by the Belgian Presidency of the European Union. Around 4.500 participants are expected to attend this event."

EuroRec: European Institute for Health Records - News

EuroRec: European Institute for Health Records - News: "Presentations High Level eHealth Ministerial Conference & WoHIT"

EuroRec: European Institute for Health Records - services

EuroRec: European Institute for Health Records - services: "EHR Archetypes



Background
EHR Archetypes are a formal, rigorous and standardised (interoperable) specification for an agreed consensus or best practice representation of a clinical data structure within an electronic health record.
The strength of the approach taken internationally on the communication (sharing) or electronic health record information has been the development of a rigorous generic representation suitable for all kinds of entries. Provided that the communications architecture is common to both a sending and a receiving information system, any health record extract will contain all of the structure and names required for it to be interpreted faithfully on receipt even if its organisation and the nature of the clinical content have not been 'agreed' in advance."

EuroRec: European Institute for Health Records

EuroRec: European Institute for Health Records: "The EUROREC Institute (EuroRec) is an independent not-for-profit organisation, promoting in Europe the use of high quality Electronic Health Record systems (EHRs). One of its main missions is to support, as the European authorised certification body, EHRs certification development, testing and assessment by defining functional and other criteria."


CF AJ slovak verzia

openEHR :: future proof and flexible EHR specifications

Welcome to openEHR - openEHR :: future proof and flexible EHR specifications: "Welcome to openEHR
openEHR is about enabling ICT to effectively support healthcare, medical research and related areas. Today ICT is used ubiquitously elsewhere, but is far from effective in Healthcare. The main problem in health is the lack of shareable and computable information."

SNOMED CT_IHTSDO: Slovak Republic

IHTSDO: Slovak Republic: "The Slovak Republic's representative to the International Health Terminology Standards Development Organisation (IHT SDO®) is the National Health Information Center (NHIC). NHIC is the state contributory organization established by the Ministry of Health of Slovak Republic. NHIC became the full member of IHT SDO in November 2009 thus joining the international effort to develop, maintain and use SNOMED CT in the healthcare systems."

TRANSLATION - Experience by DANISH, SWEDISH, CANADIANS

IGF2BP2 variations influence repaglinide response ... [Acta Pharmacol Sin. 2010] - PubMed result

IGF2BP2 variations influence repaglinide response ... [Acta Pharmacol Sin. 2010] - PubMed result: "IGF2BP2 variations influence repaglinide response and risk of type 2 diabetes in Chinese population."

Open Workbench - Home

Open Workbench - Home: "Open Workbench is an open source desktop application that provides robust project scheduling and management functionality. Already the scheduling standard for more than 100,000 project managers worldwide, Open Workbench is a free and powerful alternative to Microsoft Project."

Clinical Trial Software | OpenClinica

Clinical Trial Software OpenClinica: "Professional Open Source for Clinical Research.
OpenClinica is clinical trials software for electronic data capture (EDC) and clinical data management (CDM). This website contains official resources and information about OpenClinica."

Clinical Trial Software | OpenClinica - OpenClinica Tutorial Videos

Clinical Trial Software OpenClinica - OpenClinica Tutorial Videos: "OpenClinica Tutorial Videos
The following video tutorials demonstrate installing and using OpenClinica."

The OpenClinica Blog

The OpenClinica Blog: "Musings on open source and open standards in clinical trial software and healthcare IT"

Taskjuggler - The Open Source Project Management Software - Home

Taskjuggler - The Open Source Project Management Software - Home: "TaskJuggler is a modern and powerful, Free and Open Source Software project management tool. Its new approach to project planing and tracking is more flexible and superior to the commonly used Gantt chart editing tools. It has already been successfully used in many projects and scales easily to projects with hundreds of resources and thousands of tasks."

Eureka | Download Eureka software for free at SourceForge.net

Eureka Download Eureka software for free at SourceForge.net: "An application useful to manage work shifts. Windows standalone executable for operators and web interface for workers. Multi-area, multi-schema, multi-language architecture. Layer for RDBMS technology independence, DB and LDAP authentication supported."

List of open source healthcare software - Wikipedia, the free encyclopedia

List of open source healthcare software - Wikipedia, the free encyclopedia: "List of open source healthcare software"

SPSS Data Definition Syntax

SPSS Data Definition Syntax: "Statistical Package for the Social Sciences
Syntax for Data Definition Commands"


older blog - refers to SPSS v 10, but nice layout, basic concepts useful

Stats: Adjusting for a baseline measurement (February 28, 2005)

Stats: Adjusting for a baseline measurement (February 28, 2005): "Adjusting for a baseline measurement (February 28, 2005)."

Arterial Stiffness in the Young: Assessment, Determinants, and Implications. - novoseek

Arterial Stiffness in the Young: Assessment, Determinants, and Implications. - novoseek: "Arterial Stiffness in the Young: Assessment, Determinants, and Implications.
KCJ 2010,Apr,01;40(4):153-162; (PMCID: 2859331, DOI:10.4070/kcj.2010.40.4.153)"

Novoseek XXXXXX

Your new biomedical search engine – Novoseek: "What is novoseek?
Biomedical search engine for medical journals in Pubmed, Free Full Text and U.S. Grants that helps to:
Retrieve meaningful documents related to your search.
Narrow your search to find results in the relevant scientific journals.
Identify the most relevant biomedical concepts to your search."

iGoogle for Productivity and Outreach

iGoogle for Productivity and Outreach: "iGoogle for Productivity and Outreach"

Interpreting results: Repeated measures two-way ANOVA

Interpreting results: Repeated measures two-way ANOVA: "Are you sure that ANOVA is the best analysis?
Before interpreting the ANOVA results, first do a reality check. If one of the factors is a quantitative factor like time or dose, consider alternatives to ANOVA.
Interpreting P values from repeated measures two-way ANOVA"

Interpreting results: Two-way ANOVA

Interpreting results: Two-way ANOVA: "Interpreting results: Two-way ANOVA"

New View of Statistics: Repeated Measures - 5

New View of Statistics: Repeated Measures - 5: "Other Repeated-Measures Models"

New View of Statistics: Repeated Measures - 3

New View of Statistics: Repeated Measures - 3: "Repeated-Measures ANOVA with three or more trials and no between-subjects effect"

Stats: Adjusting for a baseline measurement (February 28, 2005)

Stats: Adjusting for a baseline measurement (February 28, 2005): "Adjusting for a baseline measurement (February 28, 2005).
Someone asked me today about how to analyze a two group experiment with a baseline value. This is common research design. Researchers will assess all patients at the beginning of the study. They then randomly assign half of these patients to receive an intervention and half to be in a control group. Then they take a second measurement of the same outcome. The measurement at the beginning of the study, the baseline value, helps improve the research design by removing some of the variation in the data."

PubMed Online Training

PubMed Online Training: "The following are brief animated tutorials with audio for using PubMed. Running times are rounded to the nearest minute. Click on the link to launch the tour."

SPSS syntax SHARING

CF blog, syntax,
tool - copy?

Brain Map

Brain Map: "Welcome to the Brain Map website.
Our site is aimed at providing you with information about magneto-encephalo-graphy, also know as MEG.
MEG is a non invasive and accurate imaging technique for localizing brain activity.
On this website you will find valuable information on MEG imaging and who it's meant for.
Bar Ilan is honored to offer the only MEG clinic services in the Mediterranean area.

FIND OUT MORE ABOUT MEG"

YouTube - Drupal Taxonomy

YouTube - Drupal Taxonomy: "Drupal Taxonomy"

Cited by ..

Cited by ..: "Estimates of heritable and environmental components of familial breast cancer using family history information
E Couto and K Hemminki
Br J Cancer. 2007 June 4; 96(11): 1740–1742. Published online 2007 May 1. doi: 10.1038/sj.bjc.6603753.
PMCID: PMC2359918"

Cited by ..

Cited by ..: "Using Risk-based Sampling to Enrich Cohorts for Endpoints, Genes, and Exposures
Clarice R. Weinberg, David L. Shore, David M. Umbach, and Dale P. Sandler
Am J Epidemiol. Author manuscript; available in PMC 2008 August 15.
PMCID: PMC2077981"

Cited by ..

Cited by ..: "Tamoxifen Pharmacogenomics: The Role of CYP2D6 as a Predictor of Drug Response
MP Goetz, A Kamal, and MM Ames"

Prospective surveillance of women with a family history of breast cancer

Cited by ..: "Prospective surveillance of women with a family history of breast cancer: auditing the risk threshold
E Anderson, J Berg, R Black, N Bradshaw, J Campbell, H Carnaghan, R Cetnarkyj, S Drummond, R Davidson, J Dunlop, A Fordyce, B Gibbons, D Goudie, H Gregory, S Holloway, M Longmuir, L McLeish, V Murday, Z Miedzybrodska, D Nicholson, P Pearson, M Porteous, M Reis, S Slater, K Smith, E Smyth, L Snadden, M Steel, D Stirling, C Watt, C Whyte, and D Young
Br J Cancer. 2008 February 26; 98(4): 840–844. Published online 2008 February 19. doi: 10.1038/sj.bjc.6604155.
PMCID: PMC2259176"

Age of onset in familial cancer .

Cited by ..: "Age of onset in familial cancer
A. Brandt, J. Lorenzo Bermejo, J. Sundquist, and K. Hemminki
Ann Oncol. 2008 December; 19(12): 2084–2088. Published online 2008 July 24. doi: 10.1093/annonc/mdn527.
PMCID: PMC2733121
Abstract Full Text PDF–72K "

YouTube - Drupal Timetracker

YouTube - Drupal Timetracker: "Drupal Timetracker" presentation
XXXXXX

time management OA drupal

bubble timer

make widget

http://www.widgetbox.com/widget/form-pro?r=%2Fmake%2F

make widget

How to open links in a new window ? at Blogger Templates & Community | Help with blogspot template

How to open links in a new window ? at Blogger Templates & Community Help with blogspot template: "How to open links in a new window ?If you want to open links in a new window you need to do modify your link from
Link to us!
to
Link to us!
Remember that it’s a good ideea to warn your visitors about that by changing the title also in title=”BloggerO - opens in new window”
Another radical way is to add in your template between this line:
<> this line:
< target="”_blank”">
this line: < target="”_blank”">

and all links will open in a new window."


hallelujah - how to write tags in html document ///to make it ignore - use escape sign ampersand & eg &lt & = ampersand and lowerthan, greaterthan etc.

research presentation web SCRIPT from CAMBRIDGE

http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?CMD=search&CrntRpt=DocSum&DB=pubmed&WebEnv=0wdifPSGHVwjqyV9JldVH0eaNUhBzXjZR_NtJ4h9-5c3YthAZF5T5w%406YMSfIIOFtoAABrvUzYAAAAP&cmd=search&db=pubmed&dispmax=20&dispmax1=20&dopt1=DocSum&filters=on&orig_db=pubmed&pubmedFilters=TRUE&query_hl=9&query_key=9&showndispmax=20&term=(Javorsky+M%5BAuthor+Name%5D+OR+Tkac+I%5BAuthor+Name%5D+OR+Stancakova+A%5BAuthor+Name%5D+OR+Laakso+M%5BAuthor+Name%5D)+AND+(2009%5BDP%5D)

ANCHOR A HREF ...
???? PROBLEM - SHOULD OPENNEW WINDOW !!!!!
CF http://www.phpc.cam.ac.uk/MEU/Publications/

2009


http://bloggero.com/23/how-to/how-to-open-links-in-a-new-window

DIABETES RISK PREDICTION

EXAMPLE OF BIBLIOGRAPHY EXPORT FROM ZOTERO.
CF PREFERENCES TO INCLUDE LINK TO pubmed for first ciatation
- another tool cf - Zotero - create REPORT
-- CREATES webpage with all bibliographic info, incl link to PUBMED

1. J Li et al., “A more simplified Finnish diabetes risk score for opportunistic screening of undiagnosed type 2 diabetes in a German population with a family history of the metabolic syndrome,” Hormone and Metabolic Research = Hormon- Und Stoffwechselforschung = Hormones Et Métabolisme 41, no. 2 (February 2009): 98-103.
2. P E H Schwarz et al., “Tools for predicting the risk of type 2 diabetes in daily practice,” Hormone and Metabolic Research = Hormon- Und Stoffwechselforschung = Hormones Et Métabolisme 41, no. 2 (February 2009): 86-97.
3. Peter E H Schwarz et al., “The Finnish Diabetes Risk Score is associated with insulin resistance and progression towards type 2 diabetes,” The Journal of Clinical Endocrinology and Metabolism 94, no. 3 (March 2009): 920-926.
4. TUOMILEHTO LECTURE“guidelines_impmeetingdiabetes_004tuomilehto.pdf,” http://www.escardio.org/guidelines-surveys/esc-guidelines/implementation/Documents/guidelines_impmeetingdiabetes_004tuomilehto.pdf.
5. .
6. “RISK questionnaire to screen for prediabetes and undiagnosed type 2 diabetes.pdf,” http://www.alcoa.ca/e/diabetes_group_resources/RISK%20questionnaire%20to%20screen%20for%20prediabetes%20and%20undiagnosed%20type%202%20diabetes.pdf.

BIOMARKERS, predictor, risk factor

Validation of Biomarker-Based Risk Prediction Models

Multiple Biomarkers for Predicting Cardiovascular Events: Lessons LearnedWang J Am Coll Cardiol.2010; 55: 2092-2095

The Limitations of Risk Factors as Prognostic Tools
James H. Ware, Ph.D.

Risk Factors for Near-Term Myocardial Infarction in Apparently Healthy Men and WomenBørge G. Nordestgaard