Yudi Pawitan

Yudi Pawitan

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Yudi Pawitan

Publications by authors named "Yudi Pawitan"

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

Bioinformatics 2019 Nov;35(22):4679-4687

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm 17177, Sweden.

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http://dx.doi.org/10.1093/bioinformatics/btz288DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6853710PMC
November 2019

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

Bioinformatics 2019 Aug 10. Epub 2019 Aug 10.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1093/bioinformatics/btz640DOI Listing
August 2019

Disease trajectories and mortality among women diagnosed with breast cancer.

Breast Cancer Res 2019 08 16;21(1):95. Epub 2019 Aug 16.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Nobels Väg 12A, 171 77, Stockholm, Sweden.

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http://dx.doi.org/10.1186/s13058-019-1181-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6698019PMC
August 2019

On the relationship between the heritability and the attributable fraction.

Hum Genet 2019 Apr 2;138(4):425-435. Epub 2019 Apr 2.

Karolinska Institute, Nobels väg 12A, 171 77, Stockholm, Sweden.

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http://dx.doi.org/10.1007/s00439-019-02006-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6483966PMC
April 2019

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

Sci Rep 2019 Mar 25;9(1):5064. Epub 2019 Mar 25.

Data Science for Knowledge Creation Research Center, Seoul National University, Seoul, South Korea.

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http://www.nature.com/articles/s41598-019-41294-y
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http://dx.doi.org/10.1038/s41598-019-41294-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6433923PMC
March 2019

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

Stat Methods Med Res 2019 02 13;28(2):462-485. Epub 2017 Sep 13.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Solna, Sweden.

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http://dx.doi.org/10.1177/0962280217727558DOI Listing
February 2019

Likelihood-based inference for bounds of causal parameters.

Stat Med 2018 12 28;37(30):4695-4706. Epub 2018 Aug 28.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1002/sim.7949DOI Listing
December 2018

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

Mol Ecol Resour 2018 Nov 20;18(6):1247-1262. Epub 2018 Jun 20.

Department of Evolutionary Biology, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1111/1755-0998.12909DOI Listing
November 2018

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

BMC Genomics 2018 Nov 1;19(1):786. Epub 2018 Nov 1.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Nobels väg 12A, Stockholm, 17177, Sweden.

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https://bmcgenomics.biomedcentral.com/articles/10.1186/s1286
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http://dx.doi.org/10.1186/s12864-018-5156-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6211471PMC
November 2018

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

Bioinformatics 2018 07;34(14):2392-2400

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1093/bioinformatics/bty100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6041805PMC
July 2018

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

Biol Direct 2018 07 16;13(1):14. Epub 2018 Jul 16.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Box 281, Nobels vag 12A, Karolinska Institutet, 171 77, Stockholm, PO, Sweden.

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http://dx.doi.org/10.1186/s13062-018-0218-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6048860PMC
July 2018

Parametric and penalized generalized survival models.

Stat Methods Med Res 2018 05 1;27(5):1531-1546. Epub 2016 Sep 1.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Sweden.

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http://dx.doi.org/10.1177/0962280216664760DOI Listing
May 2018

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

Biol Psychiatry 2018 04 21;83(7):589-597. Epub 2017 Sep 21.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden; Seaver Autism Center for Research and Treatment, Icahn School of Medicine at Mount Sinai, New York, New York; Department of Psychiatry, Icahn School of Medicine at Mount Sinai, New York, New York.

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http://dx.doi.org/10.1016/j.biopsych.2017.09.007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5880679PMC
April 2018

Generalized survival models for correlated time-to-event data.

Stat Med 2017 Dec 14;36(29):4743-4762. Epub 2017 Sep 14.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Nobels väg 12A, S-171 77 Stockholm, Sweden.

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http://dx.doi.org/10.1002/sim.7451DOI Listing
December 2017

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

Am J Hum Genet 2017 Dec;101(6):903-912

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Nobels väg 12A, SE-171 77 Stockholm, Sweden; Center for Population Health Sciences, Usher Institute of Population Health Sciences and Informatics, Old Medical School, University of Edinburgh, Teviot Place, Edinburgh EH8 9AG, Scotland, United Kingdom. Electronic address:

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http://dx.doi.org/10.1016/j.ajhg.2017.09.027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5812891PMC
December 2017

Sparse estimation of gene-gene interactions in prediction models.

Stat Methods Med Res 2017 Oct 11;26(5):2319-2332. Epub 2015 Aug 11.

4 Department of Statistics, Seoul National University, Seoul, Korea.

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http://dx.doi.org/10.1177/0962280215597261DOI Listing
October 2017

Patterns of acute inflammatory symptoms prior to cancer diagnosis.

Sci Rep 2017 03 6;7(1):67. Epub 2017 Mar 6.

Department of Medical Epidemiology and Biostatistics, Karolinska Insitutet, Stockholm, Sweden.

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http://dx.doi.org/10.1038/s41598-017-00133-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5427907PMC
March 2017

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

Breast Cancer Res 2017 03 14;19(1):29. Epub 2017 Mar 14.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Box 281, Stockholm, 171 77, Sweden.

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http://dx.doi.org/10.1186/s13058-017-0820-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5348894PMC
March 2017

ABO blood group and risk of cancer: A register-based cohort study of 1.6 million blood donors.

Cancer Epidemiol 2016 10 25;44:40-43. Epub 2016 Jul 25.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden; Hematology Centre, Karolinska University Hospital, Stockholm, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.canep.2016.06.005DOI Listing
October 2016

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

J Proteome Res 2016 10 12;15(10):3473-3480. Epub 2016 Sep 12.

Affinity Proteomics, Science for Life Laboratory, School of Biotechnology, KTH - Royal Institute of Technology , Solna 171 65, Sweden.

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http://pubs.acs.org/doi/10.1021/acs.jproteome.5b01131
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http://dx.doi.org/10.1021/acs.jproteome.5b01131DOI Listing
October 2016

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

Oncotarget 2016 Oct;7(42):68851-68863

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, SE 17177 Stockholm, Sweden.

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http://dx.doi.org/10.18632/oncotarget.11998DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5356595PMC
October 2016

Nonparametric estimation of the rediscovery rate.

Stat Med 2016 08 22;35(18):3203-12. Epub 2016 Feb 22.

Department of Statistics, Inha University, Incheon, Korea.

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http://dx.doi.org/10.1002/sim.6915DOI Listing
August 2016

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

Bioinformatics 2016 07 19;32(14):2128-35. Epub 2016 Apr 19.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, 17177 Stockholm, Sweden.

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http://dx.doi.org/10.1093/bioinformatics/btw202DOI Listing
July 2016

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

Genet Epidemiol 2016 07 27;40(5):416-24. Epub 2016 May 27.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1002/gepi.21974DOI Listing
July 2016

Model-based estimation of the attributable fraction for cross-sectional, case-control and cohort studies using the R package AF.

Eur J Epidemiol 2016 06 18;31(6):575-82. Epub 2016 Mar 18.

Karolinska Institute, Nobels väg 12A, 171 77, Stockholm, Sweden.

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http://link.springer.com/10.1007/s10654-016-0137-7
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http://dx.doi.org/10.1007/s10654-016-0137-7DOI Listing
June 2016

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

Authors:
Genevera I Allen Nicola Amoroso Catalina Anghel Venkat Balagurusamy Christopher J Bare Derek Beaton Roberto Bellotti David A Bennett Kevin L Boehme Paul C Boutros Laura Caberlotto Cristian Caloian Frederick Campbell Elias Chaibub Neto Yu-Chuan Chang Beibei Chen Chien-Yu Chen Ting-Ying Chien Tim Clark Sudeshna Das Christos Davatzikos Jieyao Deng Donna Dillenberger Richard J B Dobson Qilin Dong Jimit Doshi Denise Duma Rosangela Errico Guray Erus Evan Everett David W Fardo Stephen H Friend Holger Fröhlich Jessica Gan Peter St George-Hyslop Satrajit S Ghosh Enrico Glaab Robert C Green Yuanfang Guan Ming-Yi Hong Chao Huang Jinseub Hwang Joseph Ibrahim Paolo Inglese Anandhi Iyappan Qijia Jiang Yuriko Katsumata John S K Kauwe Arno Klein Dehan Kong Roland Krause Emilie Lalonde Mario Lauria Eunjee Lee Xihui Lin Zhandong Liu Julie Livingstone Benjamin A Logsdon Simon Lovestone Tsung-Wei Ma Ashutosh Malhotra Lara M Mangravite Taylor J Maxwell Emily Merrill John Nagorski Aishwarya Namasivayam Manjari Narayan Mufassra Naz Stephen J Newhouse Thea C Norman Ramil N Nurtdinov Yen-Jen Oyang Yudi Pawitan Shengwen Peng Mette A Peters Stephen R Piccolo Paurush Praveen Corrado Priami Veronica Y Sabelnykova Philipp Senger Xia Shen Andrew Simmons Aristeidis Sotiras Gustavo Stolovitzky Sabina Tangaro Andrea Tateo Yi-An Tung Nicholas J Tustison Erdem Varol George Vradenburg Michael W Weiner Guanghua Xiao Lei Xie Yang Xie Jia Xu Hojin Yang Xiaowei Zhan Yunyun Zhou Fan Zhu Hongtu Zhu Shanfeng Zhu

Alzheimers Dement 2016 06 11;12(6):645-53. Epub 2016 Apr 11.

School of Computer Science, Fudan University, Shanghai, Shanghai, China; Shanghai Key Lab of Intelligent Information Processing, Fudan University, Shanghai, Shanghai, China; Centre for Computational Systems Biology, Fudan University, Shanghai, China.

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http://dx.doi.org/10.1016/j.jalz.2016.02.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5474755PMC
June 2016

Identifying and Assessing Interesting Subgroups in a Heterogeneous Population.

Biomed Res Int 2015 3;2015:462549. Epub 2015 Aug 3.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, 17177 Stockholm, Sweden.

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http://dx.doi.org/10.1155/2015/462549DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4539210PMC
May 2016

Doubly robust methods for handling confounding by cluster.

Biostatistics 2016 Apr 26;17(2):264-76. Epub 2015 Oct 26.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Nobels väg 12A, Solna, Sweden.

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http://dx.doi.org/10.1093/biostatistics/kxv041DOI Listing
April 2016

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

Twin Res Hum Genet 2016 Apr 22;19(2):97-103. Epub 2016 Feb 22.

Department of Medical Epidemiology and Biostatistics,Karolinska Institutet,Stockholm,Sweden.

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http://dx.doi.org/10.1017/thg.2016.5DOI Listing
April 2016

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

Hum Mol Genet 2015 Dec 16;24(23):6849-60. Epub 2015 Sep 16.

Molecular Epidemiology and Science for Life Laboratory, Department of Medical Sciences, Uppsala University, SE-751 41 Uppsala, Sweden, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK and Department of Medicine, Division of Cardiovascular Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA

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http://dx.doi.org/10.1093/hmg/ddv379DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4643645PMC
December 2015

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

Stat Appl Genet Mol Biol 2015 Nov;14(5):481-95

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http://dx.doi.org/10.1515/sagmb-2014-0089DOI Listing
November 2015

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.

PLoS One 2014 8;9(10):e109610. Epub 2014 Oct 8.

Department of Oncology-Pathology, Karolinska Institutet, Stockholm, Sweden; Clinical Oncology, Karolinska University Hospital, Stockholm, Sweden; Chundsell Medicals AB, Stockholm, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0109610PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4190108PMC
October 2015

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

Bioinformatics 2015 Aug 24;31(16):2607-13. Epub 2015 Mar 24.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1093/bioinformatics/btv164DOI Listing
August 2015

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

Eur J Cancer 2015 Apr 25;51(6):751-7. Epub 2015 Feb 25.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1016/j.ejca.2015.02.004DOI Listing
April 2015

Bounds on sufficient-cause interaction.

Eur J Epidemiol 2014 Nov 24;29(11):813-20. Epub 2014 Sep 24.

Department of Medical Epidemiology, Karolinska Institute, Stockholm, Sweden,

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http://dx.doi.org/10.1007/s10654-014-9953-9DOI Listing
November 2014

Most genetic risk for autism resides with common variation.

Nat Genet 2014 Aug 20;46(8):881-5. Epub 2014 Jul 20.

1] Seaver Autism Center for Research and Treatment, Icahn School of Medicine at Mount Sinai, New York, New York, USA. [2] Department of Psychiatry, Icahn School of Medicine at Mount Sinai, New York, New York, USA. [3] Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, New York, USA. [4] Friedman Brain Institute, Icahn School of Medicine at Mount Sinai, New York, New York, USA. [5] Department of Neuroscience, Icahn School of Medicine at Mount Sinai, New York, New York, USA. [6] The Mindich Child Health and Development Institute, Icahn School of Medicine at Mount Sinai, New York, New York, USA.

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http://dx.doi.org/10.1038/ng.3039DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4137411PMC
August 2014

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

Bioinformatics 2014 Feb 3;30(4):506-13. Epub 2013 Dec 3.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden, Department of Molecular and Translational Medicine, University of Brescia, Italy and Department of Mathematics and Statistics, La Trobe University, Australia.

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http://dx.doi.org/10.1093/bioinformatics/btt704DOI Listing
February 2014

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

Stat Med 2013 Dec 18;32(30):5340-52. Epub 2013 Sep 18.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, 17177 Stockholm, Sweden.

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http://dx.doi.org/10.1002/sim.5975DOI Listing
December 2013

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

J Proteome Res 2013 Sep 13;12(9):3934-43. Epub 2013 Aug 13.

Cancer Proteomics Mass Spectrometry, Department of Oncology-Pathology, Science for Life Laboratory, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1021/pr4002096DOI Listing
September 2013

Between-within models for survival analysis.

Stat Med 2013 Aug 3;32(18):3067-76. Epub 2013 Mar 3.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm.

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http://dx.doi.org/10.1002/sim.5767DOI Listing
August 2013

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

J Biomed Inform 2013 Aug 7;46(4):697-709. Epub 2013 Jun 7.

Department of Statistics, University of Leeds, Leeds, United Kingdom.

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http://dx.doi.org/10.1016/j.jbi.2013.05.008DOI Listing
August 2013

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

Authors:
Sonja I Berndt Stefan Gustafsson Reedik Mägi Andrea Ganna Eleanor Wheeler Mary F Feitosa Anne E Justice Keri L Monda Damien C Croteau-Chonka Felix R Day Tõnu Esko Tove Fall Teresa Ferreira Davide Gentilini Anne U Jackson Jian'an Luan Joshua C Randall Sailaja Vedantam Cristen J Willer Thomas W Winkler Andrew R Wood Tsegaselassie Workalemahu Yi-Juan Hu Sang Hong Lee Liming Liang Dan-Yu Lin Josine L Min Benjamin M Neale Gudmar Thorleifsson Jian Yang Eva Albrecht Najaf Amin Jennifer L Bragg-Gresham Gemma Cadby Martin den Heijer Niina Eklund Krista Fischer Anuj Goel Jouke-Jan Hottenga Jennifer E Huffman Ivonne Jarick Åsa Johansson Toby Johnson Stavroula Kanoni Marcus E Kleber Inke R König Kati Kristiansson Zoltán Kutalik Claudia Lamina Cecile Lecoeur Guo Li Massimo Mangino Wendy L McArdle Carolina Medina-Gomez Martina Müller-Nurasyid Julius S Ngwa Ilja M Nolte Lavinia Paternoster Sonali Pechlivanis Markus Perola Marjolein J Peters Michael Preuss Lynda M Rose Jianxin Shi Dmitry Shungin Albert Vernon Smith Rona J Strawbridge Ida Surakka Alexander Teumer Mieke D Trip Jonathan Tyrer Jana V Van Vliet-Ostaptchouk Liesbeth Vandenput Lindsay L Waite Jing Hua Zhao Devin Absher Folkert W Asselbergs Mustafa Atalay Antony P Attwood Anthony J Balmforth Hanneke Basart John Beilby Lori L Bonnycastle Paolo Brambilla Marcel Bruinenberg Harry Campbell Daniel I Chasman Peter S Chines Francis S Collins John M Connell William O Cookson Ulf de Faire Femmie de Vegt Mariano Dei Maria Dimitriou Sarah Edkins Karol Estrada David M Evans Martin Farrall Marco M Ferrario Jean Ferrières Lude Franke Francesca Frau Pablo V Gejman Harald Grallert Henrik Grönberg Vilmundur Gudnason Alistair S Hall Per Hall Anna-Liisa Hartikainen Caroline Hayward Nancy L Heard-Costa Andrew C Heath Johannes Hebebrand Georg Homuth Frank B Hu Sarah E Hunt Elina Hyppönen Carlos Iribarren Kevin B Jacobs John-Olov Jansson Antti Jula Mika Kähönen Sekar Kathiresan Frank Kee Kay-Tee Khaw Mika Kivimäki Wolfgang Koenig Aldi T Kraja Meena Kumari Kari Kuulasmaa Johanna Kuusisto Jaana H Laitinen Timo A Lakka Claudia Langenberg Lenore J Launer Lars Lind Jaana Lindström Jianjun Liu Antonio Liuzzi Marja-Liisa Lokki Mattias Lorentzon Pamela A Madden Patrik K Magnusson Paolo Manunta Diana Marek Winfried März Irene Mateo Leach Barbara McKnight Sarah E Medland Evelin Mihailov Lili Milani Grant W Montgomery Vincent Mooser Thomas W Mühleisen Patricia B Munroe Arthur W Musk Narisu Narisu Gerjan Navis George Nicholson Ellen A Nohr Ken K Ong Ben A Oostra Colin N A Palmer Aarno Palotie John F Peden Nancy Pedersen Annette Peters Ozren Polasek Anneli Pouta Peter P Pramstaller Inga Prokopenko Carolin Pütter Aparna Radhakrishnan Olli Raitakari Augusto Rendon Fernando Rivadeneira Igor Rudan Timo E Saaristo Jennifer G Sambrook Alan R Sanders Serena Sanna Jouko Saramies Sabine Schipf Stefan Schreiber Heribert Schunkert So-Youn Shin Stefano Signorini Juha Sinisalo Boris Skrobek Nicole Soranzo Alena Stančáková Klaus Stark Jonathan C Stephens Kathleen Stirrups Ronald P Stolk Michael Stumvoll Amy J Swift Eirini V Theodoraki Barbara Thorand David-Alexandre Tregouet Elena Tremoli Melanie M Van der Klauw Joyce B J van Meurs Sita H Vermeulen Jorma Viikari Jarmo Virtamo Veronique Vitart Gérard Waeber Zhaoming Wang Elisabeth Widén Sarah H Wild Gonneke Willemsen Bernhard R Winkelmann Jacqueline C M Witteman Bruce H R Wolffenbuttel Andrew Wong Alan F Wright M Carola Zillikens Philippe Amouyel Bernhard O Boehm Eric Boerwinkle Dorret I Boomsma Mark J Caulfield Stephen J Chanock L Adrienne Cupples Daniele Cusi George V Dedoussis Jeanette Erdmann Johan G Eriksson Paul W Franks Philippe Froguel Christian Gieger Ulf Gyllensten Anders Hamsten Tamara B Harris Christian Hengstenberg Andrew A Hicks Aroon Hingorani Anke Hinney Albert Hofman Kees G Hovingh Kristian Hveem Thomas Illig Marjo-Riitta Jarvelin Karl-Heinz Jöckel Sirkka M Keinanen-Kiukaanniemi Lambertus A Kiemeney Diana Kuh Markku Laakso Terho Lehtimäki Douglas F Levinson Nicholas G Martin Andres Metspalu Andrew D Morris Markku S Nieminen Inger Njølstad Claes Ohlsson Albertine J Oldehinkel Willem H Ouwehand Lyle J Palmer Brenda Penninx Chris Power Michael A Province Bruce M Psaty Lu Qi Rainer Rauramaa Paul M Ridker Samuli Ripatti Veikko Salomaa Nilesh J Samani Harold Snieder Thorkild I A Sørensen Timothy D Spector Kari Stefansson Anke Tönjes Jaakko Tuomilehto André G Uitterlinden Matti Uusitupa Pim van der Harst Peter Vollenweider Henri Wallaschofski Nicholas J Wareham Hugh Watkins H-Erich Wichmann James F Wilson Goncalo R Abecasis Themistocles L Assimes Inês Barroso Michael Boehnke Ingrid B Borecki Panos Deloukas Caroline S Fox Timothy Frayling Leif C Groop Talin Haritunian Iris M Heid David Hunter Robert C Kaplan Fredrik Karpe Miriam F Moffatt Karen L Mohlke Jeffrey R O'Connell Yudi Pawitan Eric E Schadt David Schlessinger Valgerdur Steinthorsdottir David P Strachan Unnur Thorsteinsdottir Cornelia M van Duijn Peter M Visscher Anna Maria Di Blasio Joel N Hirschhorn Cecilia M Lindgren Andrew P Morris David Meyre André Scherag Mark I McCarthy Elizabeth K Speliotes Kari E North Ruth J F Loos Erik Ingelsson

Nat Genet 2013 May 7;45(5):501-12. Epub 2013 Apr 7.

US Department of Health and Human Services, Division of Cancer Epidemiology and Genetics, National Cancer Institute, US National Institutes of Health, Bethesda, Maryland, USA.

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http://dx.doi.org/10.1038/ng.2606DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3973018PMC
May 2013

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

PLoS One 2012 24;7(7):e41783. Epub 2012 Jul 24.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0041783PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3404054PMC
February 2013

Verifying elimination programs with a special emphasis on cysticercosis endpoints and postelimination surveillance.

J Parasitol Res 2012 14;2012:974950. Epub 2012 Nov 14.

Division of Parasitic Diseases and Malaria, Center for Global Health, Centers for Disease Control and Prevention, Atlanta, GA 30329, USA.

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http://dx.doi.org/10.1155/2012/974950DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3505642PMC
December 2012

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

Bioinformatics 2012 Nov 31;28(21):2711-8. Epub 2012 Aug 31.

Saw Swee Hock School of Public Health, National University of Singapore, Singapore 117597.

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https://academic.oup.com/bioinformatics/article-lookup/doi/1
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http://dx.doi.org/10.1093/bioinformatics/bts535DOI Listing
November 2012

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

BMC Bioinformatics 2012 Sep 11;13:226. Epub 2012 Sep 11.

School of Biotechnology, Royal Institute of Technology, Stockholm, Sweden.

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http://dx.doi.org/10.1186/1471-2105-13-226DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3505158PMC
September 2012

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

Mod Pathol 2012 Aug 20;25(8):1055-68. Epub 2012 Apr 20.

Cancer Science Institute of Singapore, National University of Singapore, Singapore, Singapore.

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http://www.nature.com/articles/modpathol201262
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http://dx.doi.org/10.1038/modpathol.2012.62DOI Listing
August 2012

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

Dev Psychopathol 2012 Aug;24(3):739-53

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, P.O. Box 281, Stockholm 171 77, Sweden.

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http://dx.doi.org/10.1017/S095457941200034XDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3662004PMC
August 2012

Exome versus transcriptome sequencing in identifying coding region variants.

Expert Rev Mol Diagn 2012 Apr;12(3):241-51

Cancer Science Institute of Singapore, #12-01, MD6, Centre for Translational Medicine, NUS Yong Loo Lin School of Medicine, National University of Singapore, 14 Medical Drive, 117599, Singapore.

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http://dx.doi.org/10.1586/erm.12.10DOI Listing
April 2012

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

Expert Rev Mol Diagn 2012 Mar;12(2):159-73

Cancer Science Institute of Singapore, National University of Singapore, Singapore.

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http://dx.doi.org/10.1586/erm.11.95DOI Listing
March 2012

Regions of homozygosity in three Southeast Asian populations.

J Hum Genet 2012 Feb 1;57(2):101-8. Epub 2011 Dec 1.

Centre for Molecular Epidemiology, National University of Singapore, Singapore.

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http://dx.doi.org/10.1038/jhg.2011.132DOI Listing
February 2012

Heritability, assortative mating and gender differences in violent crime: results from a total population sample using twin, adoption, and sibling models.

Behav Genet 2012 Jan 15;42(1):3-18. Epub 2011 Jul 15.

Department of Medical Epidemiology and Biostatistics, Karolinska Institute, PO Box 281, 171 77, Stockholm, Sweden.

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http://dx.doi.org/10.1007/s10519-011-9483-0DOI Listing
January 2012

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

Bioinformatics 2012 Jan 28;28(1):40-7. Epub 2011 Oct 28.

Department of Statistics, University of Leeds, Leeds LS2 9JT, UK.

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http://dx.doi.org/10.1093/bioinformatics/btr593DOI Listing
January 2012

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

Hum Genomics 2011 Oct;5(6):577-622

Centre for Molecular Epidemiology, Department of Epidemiology and Public Health, Yong Loo Lin School of Medicine, National University of Singapore, Singapore.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3525251PMC
http://dx.doi.org/10.1186/1479-7364-5-6-577DOI Listing
October 2011

Copy number polymorphisms in new HapMap III and Singapore populations.

J Hum Genet 2011 Aug 16;56(8):552-60. Epub 2011 Jun 16.

Centre for Molecular Epidemiology, Department of Epidemiology and Public Health (MD3), Yong Loo Lin School of Medicine, National University of Singapore, 16 Medical Drive, Singapore.

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http://dx.doi.org/10.1038/jhg.2011.54DOI Listing
August 2011

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

J Hum Genet 2011 Jul 2;56(7):524-33. Epub 2011 Jun 2.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1038/jhg.2011.52DOI Listing
July 2011

Multi-platform segmentation for joint detection of copy number variants.

Bioinformatics 2011 Jun 5;27(11):1555-61. Epub 2011 Apr 5.

Centre for Molecular Epidemiology, Department of Epidemiology and Public Health, National University of Singapore, Singapore.

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http://dx.doi.org/10.1093/bioinformatics/btr162DOI Listing
June 2011

Revisiting Mendelian disorders through exome sequencing.

Hum Genet 2011 Apr 18;129(4):351-70. Epub 2011 Feb 18.

Department of Epidemiology and Public Health, Centre for Molecular Epidemiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore, Singapore.

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http://dx.doi.org/10.1007/s00439-011-0964-2DOI Listing
April 2011

Regions of homozygosity and their impact on complex diseases and traits.

Hum Genet 2011 Jan 23;129(1):1-15. Epub 2010 Nov 23.

Department of Epidemiology and Public Health, Centre for Molecular Epidemiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore, Singapore.

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http://dx.doi.org/10.1007/s00439-010-0920-6DOI Listing
January 2011

Normalization of gene-expression microarray data.

Methods Mol Biol 2010 ;673:37-52

Department of Medical Epidemiology and Biostatistics, Karolinska Institute, Stockholm, Sweden.

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http://dx.doi.org/10.1007/978-1-60761-842-3_3DOI Listing
December 2010

Modified least-variant set normalization for miRNA microarray.

RNA 2010 Dec 27;16(12):2293-303. Epub 2010 Oct 27.

Centre for Molecular Epidemiology, National University of Singapore, 117597 Singapore.

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http://dx.doi.org/10.1261/rna.2345710DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2995391PMC
December 2010

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

Stat Med 2010 Dec;29(30):3258-66

Department of Psychiatry, The University of Hong Kong, Queen Mary Hospital, 102 Pokfulam Road, Hong Kong.

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http://dx.doi.org/10.1002/sim.3907DOI Listing
December 2010

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

J Hum Genet 2010 Jul 20;55(7):403-15. Epub 2010 May 20.

Department of Epidemiology and Public Health, Centre for Molecular Epidemiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore.

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http://www.nature.com/articles/jhg201055
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http://dx.doi.org/10.1038/jhg.2010.55DOI Listing
July 2010

Genomic copy number variations in three Southeast Asian populations.

Hum Mutat 2010 Jul;31(7):851-7

Centre for Molecular Epidemiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore.

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http://dx.doi.org/10.1002/humu.21287DOI Listing
July 2010

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

BMC Bioinformatics 2010 Jun 2;11:296. Epub 2010 Jun 2.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1186/1471-2105-11-296DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2902448PMC
June 2010

Matched ascertainment of informative families for complex genetic modelling.

Behav Genet 2010 May 24;40(3):404-14. Epub 2009 Dec 24.

Department of Psychiatry, University of Hong Kong, Hong Kong, China.

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http://dx.doi.org/10.1007/s10519-009-9322-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2953624PMC
May 2010

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

J Hum Genet 2010 Apr 19;55(4):195-206. Epub 2010 Mar 19.

Department of Epidemiology and Public Health, Yong Loo Lin School of Medicine, Centre for Molecular Epidemiology, National University of Singapore, Singapore.

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http://dx.doi.org/10.1038/jhg.2010.19DOI Listing
April 2010

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

BMC Bioinformatics 2010 Mar 22;11:147. Epub 2010 Mar 22.

Department of Epidemiology and Public Health, National University of Singapore, 16 Medical Drive, Singapore.

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http://dx.doi.org/10.1186/1471-2105-11-147DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2851607PMC
March 2010

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

Am J Epidemiol 2009 Dec 23;170(11):1365-72. Epub 2009 Oct 23.

Division of Public Health Epidemiology, Department of Public Health Sciences, Karolinska Institutet, Norrbacka, Fifth Floor, SE-171 76 Stockholm, Sweden.

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http://dx.doi.org/10.1093/aje/kwp328DOI Listing
December 2009

Classification of array CGH data using smoothed logistic regression model.

Stat Med 2009 Dec;28(30):3798-810

Statistical Laboratory, University College Cork, Ireland.

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http://dx.doi.org/10.1002/sim.3753DOI Listing
December 2009

How many genetic variants remain to be discovered?

PLoS One 2009 Dec 2;4(12):e7969. Epub 2009 Dec 2.

Department of Medical Epidemiology, Karolinska Institutet, Stockholm, Sweden.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2780697PMC
December 2009

Correlating gene and protein expression data using Correlated Factor Analysis.

BMC Bioinformatics 2009 Sep 1;10:272. Epub 2009 Sep 1.

Lewis-Sigler Institute, Princeton University, New Jersey, USA.

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http://dx.doi.org/10.1186/1471-2105-10-272DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2744708PMC
September 2009

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

Hum Genet 2009 Aug 1;126(2):289-301. Epub 2009 May 1.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1007/s00439-009-0676-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2865249PMC
August 2009

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

Proc Natl Acad Sci U S A 2008 Nov 10;105(47):18490-5. Epub 2008 Nov 10.

Department of Radiation and Cellular Oncology, Ludwig Center for Metastasis Research, Marjorie B. Kovler Viral Oncology Laboratories, University of Chicago, Chicago, IL 60637, USA.

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http://dx.doi.org/10.1073/pnas.0809242105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2587578PMC
November 2008

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

Epidemiology 2008 Sep;19(5):659-65

Departments of Medical Epidemiology, and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1097/ede.0b013e31818131b9DOI Listing
September 2008

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

J Proteome Res 2008 Jun 2;7(6):2332-41. Epub 2008 May 2.

Clinical Proteomics, Karolinska Biomics Center, Karolinska University Hospital, Stockholm, Sweden.

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http://dx.doi.org/10.1021/pr070482eDOI Listing
June 2008

Analysis of p53 mutation status in human cancer cell lines: a paradigm for cell line cross-contamination.

Cancer Biol Ther 2008 May 11;7(5):699-708. Epub 2008 May 11.

Karolinska Institute, Department of Oncology-Pathology, Cancer Center Karolinska (CCK), Stockholm, Sweden.

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http://dx.doi.org/10.4161/cbt.7.5.5712DOI Listing
May 2008

Unequal group variances in microarray data analyses.

Bioinformatics 2008 May 14;24(9):1168-74. Epub 2008 Mar 14.

Department of Statistics, University of Orebro, Sweden.

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http://dx.doi.org/10.1093/bioinformatics/btn100DOI Listing
May 2008

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

BMC Bioinformatics 2008 Mar 5;9:140. Epub 2008 Mar 5.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1186/1471-2105-9-140DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2324100PMC
March 2008

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

Int J Epidemiol 2008 Feb 19;37(1):185-92. Epub 2007 Sep 19.

Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1093/ije/dym167DOI Listing
February 2008

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

Cancer Epidemiol Biomarkers Prev 2008 Jan;17(1):249-51

Channing Laboratory, Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, 181 Longwood Avenue, Boston, MA 02115, USA.

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http://dx.doi.org/10.1158/1055-9965.EPI-07-0722DOI Listing
January 2008

Filtering genes to improve sensitivity in oligonucleotide microarray data analysis.

Nucleic Acids Res 2007 15;35(16):e102. Epub 2007 Aug 15.

Department of Medical Epidemiology and Biostatistics-Karolinska Institute, Stockholm, Sweden.

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http://dx.doi.org/10.1093/nar/gkm537DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2018638PMC
September 2007