List of works by Yudi Pawitan

A Critical Look at Entropy-Based Gene-Gene Interaction Measures

scientific article

A Genome-Wide Assessment of Variability in Human Serum Metabolism

article

A Selection Operator for Summary Association Statistics Reveals Allelic Heterogeneity of Complex Traits

scientific article published on 30 November 2017

A clinical model for identifying the short-term risk of breast cancer

scientific article published on 14 March 2017

A fast detection of fusion genes from paired-end RNA-seq data

article

A population-based study of copy number variants and regions of homozygosity in healthy Swedish individuals.

scientific article published on 2 June 2011

A simplified interventional mapping system (SIMS) for the selection of combinations of targeted treatments in non-small cell lung cancer

scientific article

A systems genomics approach to uncover the molecular properties of cancer genes

scientific article published on 27 October 2020

Accumulation of potential driver genes with genomic alterations predicts survival of high-risk neuroblastoma patients

scientific article published on 16 July 2018

Advancing paternal age and offspring violent offending: a sibling-comparison study

scientific article published on August 2012

Affinity proteomics reveals elevated muscle proteins in plasma of children with cerebral malaria

scientific article

Alternating EM algorithm for a bilinear model in isoform quantification from RNA-seq data

scientific article published on 01 February 2020

An expression signature for p53 status in human breast cancer predicts mutation status, transcriptional effects, and patient survival

scientific article

An interferon-related gene signature for DNA damage resistance is a predictive marker for chemotherapy and radiation for breast cancer

scholarly article

Annotated regions of significance of SELDI-TOF-MS spectra for detecting protein biomarkers

scientific article

Aspirin intake and breast cancer survival - a nation-wide study using prospectively recorded data in Sweden

scientific article

Beta-Poisson model for single-cell RNA-seq data analyses

scientific article

Between-within models for survival analysis

scientific article published on 3 March 2013

Bias in the estimation of false discovery rate in microarray studies

scientific article published on 16 August 2005

Bounds on sufficient-cause interaction

scientific article published on 24 September 2014

CREDO: Highly confident disease-relevant A-to-I RNA-editing discovery in breast cancer

scientific article published on 25 March 2019

Cancer Genome Sequencing

Case-cohort methods for survival data on families from routine registers.

scientific article

Cell-level somatic mutation detection from single-cell RNA sequencing

scientific article published on 01 November 2019

Classification of array CGH data using smoothed logistic regression model

scientific article

Common genetic determinants of schizophrenia and bipolar disorder in Swedish families: a population-based study

scientific article

Comprehensive landscape of subtype-specific coding and non-coding RNA transcripts in breast cancer.

scientific article published on 13 September 2016

Copy number polymorphisms in new HapMap III and Singapore populations

scientific article

Correcting for cancer genome size and tumour cell content enables better estimation of copy number alterations from next-generation sequence data

scientific article

Correlating gene and protein expression data using Correlated Factor Analysis

scientific article published in September 2009

Correlation test to assess low-level processing of high-density oligonucleotide microarray data

scientific article

Covariance component models for multivariate binary traits in family data analysis

scientific article

Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease

scientific article

Detecting differential expression in microarray data: comparison of optimal procedures

scientific article

Disease trajectories and mortality among women diagnosed with breast cancer

scientific article published on 16 August 2019

Distinct effects of anti-inflammatory and anti-thrombotic drugs on cancer characteristics at diagnosis

scientific article published on 25 February 2015

Estimation of false discovery proportion under general dependence

scientific article published on 17 October 2006

Estrogen-dependent signaling in a molecularly distinct subclass of aggressive prostate cancer

scientific article

Etiology of familial aggregation in melanoma and squamous cell carcinoma of the skin

scientific article published on August 2007

Exome versus transcriptome sequencing in identifying coding region variants

scientific article published on April 2012

False discovery rate, sensitivity and sample size for microarray studies.

scientific article published on 19 April 2005

Familial aggregation of small-for-gestational-age births: the importance of fetal genetic effects

scientific article published in February 2006

Filtering genes to improve sensitivity in oligonucleotide microarray data analysis.

scientific article

Finding regions of significance in SELDI measurements for identifying protein biomarkers

scientific article

Fold-change estimation of differentially expressed genes using mixture mixed-model

scientific article published on 21 September 2005

Gene discovery in familial cancer syndromes by exome sequencing: prospects for the elucidation of familial colorectal cancer type X.

scientific article

Gene expression in 16q is associated with survival and differs between Sørlie breast cancer subtypes

scientific article

Gene expression profiling spares early breast cancer patients from adjuvant therapy: derived and validated in two population-based cohorts

scientific article

Gene-based meta-analysis of genome-wide association studies implicates new loci involved in obesity

scientific article

Genetic analysis of age-at-onset traits based on case-control family data.

scientific article

Genetic and shared environmental factors do not confound the association between birth weight and hypertension: a study among Swedish twins

scientific article published on 21 May 2007

Genetic evidence of assortative mating in humans

article

Genetic mixed linear models for twin survival data

scientific article

Genetic reclassification of histologic grade delineates new clinical subtypes of breast cancer.

scientific article published in November 2006

Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture

scientific journal article

Genomic copy number variations in three Southeast Asian populations

scientific article published in July 2010

Genomic instability and prognosis in breast carcinomas

scientific article published on 01 September 2006

Heritability, Assortative Mating and Gender Differences in Violent Crime: Results from a Total Population Sample Using Twin, Adoption, and Sibling Models

article

Heritable Variation, With Little or No Maternal Effect, Accounts for Recurrence Risk to Autism Spectrum Disorder in Sweden

scientific article

High-definition likelihood inference of genetic correlations across human complex traits

scientific article published on 29 June 2020

Hormone-replacement therapy influences gene expression profiles and is associated with breast-cancer prognosis: a cohort study

scientific article

How many genetic variants remain to be discovered?

scientific article

Human genetics and genomics a decade after the release of the draft sequence of the human genome

scientific article published in October 2011

Identification of differentially expressed genes and false discovery rate in microarray studies

scientific article published on April 2007

Identification of recurrent regions of Copy-Number Variants across multiple individuals

scientific article

Identifying and Assessing Interesting Subgroups in a Heterogeneous Population.

scientific article

Importance of familial factors in associations between offspring birth weight and parental risk of type-2 diabetes

scientific article published on 19 September 2007

Improved grading of breast adenocarcinomas based on genomic instability

scientific article published in February 2004

Improving the Prediction of Prostate Cancer Overall Survival by Supplementing Readily Available Clinical Data with Gene Expression Levels of IGFBP3 and F3 in Formalin-Fixed Paraffin Embedded Core Needle Biopsy Material

scientific article

Incidence, mortality and survival patterns of prostate cancer among residents in Singapore from 1968 to 2002

scientific article

Integrated molecular portrait of non-small cell lung cancers

scientific article

Integration of somatic mutation, expression and functional data reveals potential driver genes predictive of breast cancer survival.

scientific article

Intrinsic molecular signature of breast cancer in a population-based cohort of 412 patients

scientific article published on January 2006

Is the association between general cognitive ability and violent crime caused by family-level confounders?

scientific article published in 2012

Isoform-level gene expression patterns in single-cell RNA-sequencing data.

scientific article published on 27 February 2018

Joint estimation of isoform expression and isoform-specific read distribution using multisample RNA-Seq data.

scientific article

Large-scale non-targeted metabolomic profiling in three human population-based studies

Likelihood ratio and score burden tests for detecting disease-associated rare variants.

scientific article

Likelihood-based inference for bounds of causal parameters

scientific article published on 28 August 2018

Matched ascertainment of informative families for complex genetic modelling

scientific article

Maternal and fetal genetic factors account for most of familial aggregation of preeclampsia: A population-based Swedish cohort study

Maternal effects for preterm birth: a genetic epidemiologic study of 630,000 families

scientific article published on 23 October 2009

Modelling infectious disease transmission with complex exposure pattern and sparse outcome data.

scientific article

Modified least-variant set normalization for miRNA microarray

scientific article

Molecular differences in transition zone and peripheral zone prostate tumors

scientific article published on 13 April 2015

Molecular sampling of prostate cancer: a dilemma for predicting disease progression

scientific article

Most genetic risk for autism resides with common variation ⬇️

scientific article

Multi-platform segmentation for joint detection of copy number variants

scientific article

Multidimensional Normalization to Minimize Plate Effects of Suspension Bead Array Data.

scientific article

Multidimensional local false discovery rate for microarray studies

scientific article published on 20 December 2005

Network enrichment analysis: extension of gene-set enrichment analysis to gene networks

scientific article

Nine-gene molecular signature is not associated with prostate cancer death in a watchful waiting cohort

scientific article published in January 2008

Nonparametric estimation of the rediscovery rate

scientific article

Normalization of gene-expression microarray data

scientific article

Normalization of oligonucleotide arrays based on the least-variant set of genes

scientific article

On the relationship between the heritability and the attributable fraction

One CNV Discordance in NRXN1 Observed Upon Genome-wide Screening in 38 Pairs of Adult Healthy Monozygotic Twins

scientific article published on 22 February 2016

Operator dependent choice of prostate cancer biopsy has limited impact on a gene signature analysis for the highly expressed genes IGFBP3 and F3 in prostate cancer epithelial cells

scientific article

Parental age and risk of childhood cancers: a population-based cohort study from Sweden

scientific article published on 28 September 2006

Partial least squares and logistic regression random-effects estimates for gene selection in supervised classification of gene expression data

scientific article

Patterns of acute inflammatory symptoms prior to cancer diagnosis

scientific article

Profiles of histidine-rich glycoprotein associate with age and risk of all-cause mortality

scientific article published on 31 July 2020

Profound changes in breast cancer incidence may reflect changes into a Westernized lifestyle: a comparative population-based study in Singapore and Sweden

scientific article published on January 2005

Proteomic data analysis workflow for discovery of candidate biomarker peaks predictive of clinical outcome for patients with acute myeloid leukemia

scientific article

Quantitative proteomics profiling of primary lung adenocarcinoma tumors reveals functional perturbations in tumor metabolism

scientific article published on 13 August 2013

RPASE: Individual-based allele-specific expression detection without prior knowledge of haplotype phase

scientific article published on 20 June 2018

Rediscovery rate estimation for assessing the validation of significant findings in high-throughput studies

scientific article published on 24 September 2014

Regions of homozygosity and their impact on complex diseases and traits

scientific article

Regions of homozygosity in three Southeast Asian populations

scientific article published in December 2011

Regression standardization and attributable fraction estimation with between-within frailty models for clustered survival data

scientific article published on January 2017

Reproducibility of Methods to Detect Differentially Expressed Genes from Single-Cell RNA Sequencing

scientific article published on 01 January 2019

Revisiting Mendelian disorders through exome sequencing

scientific article published on 18 February 2011

Robust ascertainment-adjusted parameter estimation

scientific article published on 01 July 2005

Robust smooth segmentation approach for array CGH data analysis

scientific article

Simple multi-trait analysis identifies novel loci associated with growth and obesity measures

scholarly article published 8 July 2015

Sparse Canonical Covariance Analysis for High-throughput Data

Sparse estimation of gene-gene interactions in prediction models

scientific article published on 11 August 2015

Sparse partial least-squares regression and its applications to high-throughput data analysis

article

Sparse partial least-squares regression for high-throughput survival data analysis

scientific article

Statistical challenges associated with detecting copy number variations with next-generation sequencing.

scientific article published on 31 August 2012

Strategies and issues in the detection of pathway enrichment in genome-wide association studies

scientific article

Super-sparse principal component analyses for high-throughput genomic data

scientific article

Technological advances in DNA sequence enrichment and sequencing for germline genetic diagnosis

scientific article published on March 2012

Testing a multigene signature of prostate cancer death in the Swedish Watchful Waiting Cohort

scientific article published on 26 June 2008

The ABC model of prostate cancer: A conceptual framework for the design and interpretation of prognostic studies

scientific article published on 2 February 2017

The Evolution of High-Throughput Sequencing Technologies: From Sanger to Single-Molecule Sequencing

The association between low birth weight and type 2 diabetes: contribution of genetic factors

scientific article published in September 2008

The discovery of human genetic variations and their use as disease markers: past, present and future.

scientific article published on 20 May 2010

The pursuit of genome-wide association studies: where are we now?

scientific article

Unequal group variances in microarray data analyses

scientific article

VEGF-A Expression Correlates with TP53 Mutations in Non-Small Cell Lung Cancer: Implications for Antiangiogenesis Therapy

scientific article published on 11 February 2015

mRNA expression signature of Gleason grade predicts lethal prostate cancer

scientific article published on 2 May 2011

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