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1

A Goodness-of-Fit Test for Multinomial Logistic Regression

Jelle J. Goeman, Saskia le Cessie

Journal:

Year:

2006

Language:

english

File:

PDF, 266 KB

english, 2006

2

Tracking the progression of the human inner cell mass during embryonic stem cell derivation

O'Leary, Thomas, Heindryckx, Björn, Lierman, Sylvie, van Bruggen, David, Goeman, Jelle J, Vandewoestyne, Mado, Deforce, Dieter, de Sousa Lopes, Susana M Chuva, De Sutter, Petra

Journal:

Nature Biotechnology

Year:

2012

Language:

english

File:

PDF, 1.79 MB

english, 2012

3

Multiple hypothesis testing in genomics

Goeman, Jelle J., Solari, Aldo

Journal:

Statistics in Medicine

Year:

2014

Language:

english

File:

PDF, 767 KB

english, 2014

4

A Goodness-of-Fit Test for Multinomial Logistic Regression

Jelle J. Goeman and Saskia le Cessie

Journal:

Year:

2006

Language:

english

File:

PDF, 1.33 MB

english, 2006

5

A global test for competing risks survival analysis

Edelmann, Dominic, Saadati, Maral, Putter, Hein, Goeman, Jelle

Journal:

Statistical Methods in Medical Research

Year:

2020

File:

PDF, 698 KB

2020

6

L1 Penalized Estimation in the Cox Proportional Hazards Model

Jelle J. Goeman

Journal:

Biometrical Journal

Year:

2010

Language:

english

File:

PDF, 277 KB

english, 2010

7

Identification and systematic annotation of tissue-specific differentially methylated regions using the Illumina 450k array

Slieker, Roderick C, Bos, Steffan D, Goeman, Jelle J, Bovée, Judith VMG, Talens, Rudolf P, van der Breggen, Ruud, Suchiman, H Eka D, Lameijer, Eric-Wubbo, Putter, Hein, van den Akker, Erik B, Zhang, Y

Journal:

Epigenetics & Chromatin

Year:

2013

Language:

english

File:

PDF, 800 KB

english, 2013

8

Fused lasso algorithm for Cox′ proportional hazards and binomial logit models with application to copy number profiles

Chaturvedi, Nimisha, de Menezes, Renée X., Goeman, Jelle J.

Journal:

Biometrical Journal

Year:

2014

Language:

english

File:

PDF, 423 KB

english, 2014

9

Rotation-based multiple testing in the multivariate linear model

Solari, Aldo, Finos, Livio, Goeman, Jelle J.

Journal:

Year:

2014

Language:

english

File:

PDF, 322 KB

english, 2014

10

Focused human gene expression profiling using dual-color reverse transcriptase multiplex ligation-dependent probe amplification (dcRT-MLPA)

Haks, Mariëlle C., Goeman, Jelle J., Magis-Escurra, Cecile, Ottenhoff, Tom H.M.

Journal:

Year:

2015

Language:

english

File:

PDF, 1.38 MB

english, 2015

11

Rejoinder

Jelle J. Goeman and Aldo Solari

Journal:

Statistical Science

Year:

2011

Language:

english

File:

PDF, 957 KB

english, 2011

12

Multiple Testing for Exploratory Research

Jelle J. Goeman and Aldo Solari

Journal:

Statistical Science

Year:

2011

Language:

english

File:

PDF, 2.02 MB

english, 2011

13

Common disease signatures from gene expression analysis in Huntington’s disease human blood and brain

Mina, Eleni, van Roon-Mom, Willeke, Hettne, Kristina, van Zwet, Erik, Goeman, Jelle, Neri, Christian, A.C. ’t Hoen, Peter, Mons, Barend, Roos, Marco

Journal:

Orphanet Journal of Rare Diseases

Year:

2016

Language:

english

File:

PDF, 1.28 MB

english, 2016

14

Correction Note

Goeman, Jelle J., Solari, Aldo

Journal:

Statistical Science

Year:

2013

Language:

english

File:

PDF, 30 KB

english, 2013

15

Exact testing with random permutations

Hemerik, Jesse, Goeman, Jelle

Journal:

Year:

2017

Language:

english

File:

PDF, 465 KB

english, 2017

16

Discussion of ‘Gene hunting with hidden Markov model knockoffs’

Rosenblatt, Jonathan D, Ritov, Ya’acov, Goeman, Jelle J

Journal:

Year:

2019

Language:

english

File:

PDF, 125 KB

english, 2019

17

The transcriptional response to chronic stress and glucocorticoid receptor blockade in the hippocampal dentate gyrus

Nicole A. Datson, Niels Speksnijder, Joseph L. Mayer, Peter J. Steenbergen, Oksana Korobko, Jelle Goeman, E. Ronald de Kloet, Marian Joëls, Paul J. Lucassen

Journal:

Year:

2012

Language:

english

File:

PDF, 401 KB

english, 2012

18

Deep sequencing to reveal new variants in pooled DNA samples

Astrid A. Out, Ivonne J.H.M. van Minderhout, Jelle J. Goeman, Yavuz Ariyurek, Stephan Ossowski, Korbinian Schneeberger, Detlef Weigel, Michiel van Galen, Peter E.M. Taschner, Carli M.J. Tops, Martijn

Journal:

Year:

2009

Language:

english

File:

PDF, 366 KB

english, 2009

19

Similar gene expression profiles of sporadic,PGL2-, andSDHD-linked paragangliomas suggest a common pathway to tumorigenesis

Erik F Hensen, Jelle J Goeman, Jan Oosting, Andel GL Van der Mey, Pancras CW Hogendoorn, Cor WRJ Cremers, Peter Devilee, Cees J Cornelisse

Journal:

BMC Medical Genomics

Year:

2009

Language:

english

File:

PDF, 948 KB

english, 2009

20

Three-sided hypothesis testing: Simultaneous testing of superiority, equivalence and inferiority

Jelle J. Goeman, Aldo Solari, Theo Stijnen

Journal:

Statistics in Medicine

Year:

2010

Language:

english

File:

PDF, 152 KB

english, 2010

21

Testing against a high dimensional alternative

Jelle J. Goeman, Sara A. Van De Geer, Hans C. Van Houwelingen

Journal:

Journal of the Royal Statistical Society: Series B (Statistical Methodology)

Year:

2006

Language:

english

File:

PDF, 171 KB

english, 2006

22

Different gene sets contribute to different symptom dimensions of depression and anxiety

Tineke van Veen, Jelle J. Goeman, Ramin Monajemi, Klaas J. Wardenaar, Catharina A. Hartman, Harold Snieder, Ilja M. Nolte, Brenda W.J.H. Penninx, Frans G. Zitman

Journal:

American Journal of Medical Genetics Part B: Neuropsychiatric Genetics

Year:

2012

Language:

english

File:

PDF, 243 KB

english, 2012

23

Resolving confusion of tongues in statistics and machine learning: A primer for biologists and bioinformaticians

Maarten van Iterson, Herman H. H. B. M. van Haagen, Jelle J. Goeman

Journal:

Year:

2012

Language:

english

File:

PDF, 500 KB

english, 2012

24

Testing goodness of fit in regression: a general approach for specified alternatives

Aldo Solari, Saskia le Cessie, Jelle J. Goeman

Journal:

Statistics in Medicine

Year:

2012

Language:

english

File:

PDF, 232 KB

english, 2012

25

Gene-expression of metastasized versus non-metastasized primary head and neck squamous cell carcinomas: A pathway-based analysis

Erik F Hensen, Maria J De Herdt, Jelle J Goeman, Jan Oosting, Vincent THBM Smit, Cees J Cornelisse, RobertJ J de Baatenburg Jong

Journal:

Year:

2008

Language:

english

File:

PDF, 973 KB

english, 2008

26

A microarray study on the effect of four hormone therapy regimens on gene transcription in whole blood from healthy postmenopausal women

Anders E.A. Dahm, Anette L. Eilertsen, Jelle Goeman, Ole Kristoffer Olstad, Reidun Øvstebø, Peter Kierulf, Marie-Christine Mowinckel, Grethe Skretting, Per Morten Sandset

Journal:

Thrombosis Research

Year:

2012

Language:

english

File:

PDF, 283 KB

english, 2012

27

Prenatal Exposure to apoE Deficiency and Postnatal Hypercholesterolemia Are Associated with Altered Cell-Specific Lysine Methyltransferase and Histone Methylation Patterns in the Vasculature

Fanneke E. Alkemade, Patrick van Vliet, Peter Henneman, Ko Willems van Dijk, Beerend P. Hierck, J. Conny van Munsteren, Joyce A. Scheerman, Jelle J. Goeman, Louis M. Havekes, Adriana C. Gittenberger-d

Journal:

The American Journal of Pathology

Year:

2010

Language:

english

File:

PDF, 516 KB

english, 2010

28

Autocorrelated Logistic Ridge Regression for Prediction Based on Proteomics Spectra

Goeman, Jelle J

Journal:

Statistical Applications in Genetics and Molecular Biology

Year:

2008

Language:

english

File:

PDF, 351 KB

english, 2008

29

Genome-wide promoter methylation analysis identifies epigenetic silencing of MAPK 13 in primary cutaneous melanoma

Gao, Linda, Smit, Marjon A., van den Oord, Joost J., Goeman, Jelle J., Verdegaal, Els M. E., van der Burg, Sjoerd H., Stas, Marguerite, Beck, Samuel, Gruis, Nelleke A., Tensen, Cornelis P., Willemze,

Journal:

Pigment Cell & Melanoma Research

Year:

2013

Language:

english

File:

PDF, 8.60 MB

english, 2013

30

Major aging-associated RNA expressions change at two distinct age-positions

Gheorghe, Marius, Snoeck, Marc, Emmerich, Michael, Bäck, Thomas, Goeman, Jelle J, Raz, Vered

Journal:

Year:

2014

Language:

english

File:

PDF, 810 KB

english, 2014

31

Human Leukocyte Antigen–DO Regulates Surface Presentation of Human Leukocyte Antigen Class II–Restricted Antigens on B Cell Malignancies

Kremer, Anita N., van der Meijden, Edith D., Honders, M. Willy, Pont, Margot J., Goeman, Jelle J., Falkenburg, J.H. Frederik, Griffioen, Marieke

Journal:

Biology of Blood and Marrow Transplantation

Year:

2014

Language:

english

File:

PDF, 994 KB

english, 2014

32

A test for comparing two groups of samples when analyzing multiple omics profiles

Nimisha Chaturvedi,Jelle J Goeman,Judith M Boer…

Journal:

BMC Bioinformatics

Year:

2014

Language:

english

File:

PDF, 965 KB

english, 2014

33

Promoter CpG Island Hypermethylation in Dysplastic Nevus and Melanoma: CLDN11 as an Epigenetic Biomarker for Malignancy

Gao, Linda, van den Hurk, Karin, Moerkerk, Peter T M, Goeman, Jelle J, Beck, Samuel, Gruis, Nelleke A, van den Oord, Joost J, Winnepenninckx, Véronique J, van Engeland, Manon, van Doorn, Remco

Journal:

The Journal of Investigative Dermatology

Year:

2014

Language:

english

File:

PDF, 1.47 MB

english, 2014

34

A multiple testing method for hypotheses structured in a directed acyclic graph

Meijer, Rosa J., Goeman, Jelle J.

Journal:

Biometrical Journal

Year:

2015

Language:

english

File:

PDF, 482 KB

english, 2015

35

Efficient approximate k -fold and leave-one-out cross-validation for ridge regression

Meijer, Rosa J., Goeman, Jelle J.

Journal:

Biometrical Journal

Year:

2013

Language:

english

File:

PDF, 646 KB

english, 2013

36

Meta-analysis on blood transcriptomic studies identifies consistently coexpressed protein-protein interaction modules as robust markers of human aging

van den Akker, Erik B., Passtoors, Willemijn M., Jansen, Rick, van Zwet, Erik W., Goeman, Jelle J., Hulsman, Marc, Emilsson, Valur, Perola, Markus, Willemsen, Gonneke, Penninx, Brenda W.J.H., Heijmans

Journal:

Year:

2014

Language:

english

File:

PDF, 443 KB

english, 2014

37

Huntington’s disease biomarker progression profile identified by transcriptome sequencing in peripheral blood

Mastrokolias, Anastasios, Ariyurek, Yavuz, Goeman, Jelle J, van Duijn, Erik, Roos, Raymund AC, van der Mast, Roos C, van Ommen, GertJan B, den Dunnen, Johan T, 't Hoen, Peter AC, van Roon-Mom, Willeke

Journal:

European Journal of Human Genetics

Year:

2015

Language:

english

File:

PDF, 539 KB

english, 2015

38

A region-based multiple testing method for hypotheses ordered in space or time

Meijer, Rosa J., Krebs, Thijmen J.P., Goeman, Jelle J.

Journal:

Statistical Applications in Genetics and Molecular Biology

Year:

2015

Language:

english

File:

PDF, 1.12 MB

english, 2015

39

The Inheritance Procedure: Multiple Testing of Tree-structured Hypotheses

Goeman, Jelle J., Finos, Livio

Journal:

Statistical Applications in Genetics and Molecular Biology

Year:

2012

Language:

english

File:

PDF, 280 KB

english, 2012

40

Genetic Susceptibility to Respiratory Syncytial Virus Bronchiolitis Is Predominantly Associated with Innate Immune Genes

Janssen, Riny, Bont, Louis, Siezen, Christine L. E., Hodemaekers, Hennie M., Ermers, Marieke J., Doornbos, Gerda, Slot, Ruben van ’t, Wijmenga, Ciska, Goeman, Jelle J., Kimpen, Jan L. L., van Houwelin

Journal:

The Journal of Infectious Diseases

Year:

2007

Language:

english

File:

PDF, 346 KB

english, 2007

41

A Kinome-Wide Small Interfering RNA Screen Identifies Proviral and Antiviral Host Factors in Severe Acute Respiratory Syndrome Coronavirus Replication, Including Double-Stranded RNA-Activated Protein Kinase and Early Secretory Pathway Proteins

de Wilde, Adriaan H., Wannee, Kazimier F., Scholte, Florine E. M., Goeman, Jelle J., ten Dijke, Peter, Snijder, Eric J., Kikkert, Marjolein, van Hemert, Martijn J., Perlman, S.

Journal:

Journal of Virology

Year:

2015

Language:

english

File:

PDF, 3.28 MB

english, 2015

42

Small studies are more heterogeneous than large ones: a meta-meta-analysis

IntHout, Joanna, Ioannidis, John P.A., Borm, George F., Goeman, Jelle J.

Journal:

Journal of Clinical Epidemiology

Year:

2015

Language:

english

File:

PDF, 622 KB

english, 2015

43

The Footprint of Genome Architecture in the Largest Genome Expansion in RNA Viruses

Lauber, Chris, Goeman, Jelle J., Parquet, Maria del Carmen, Thi Nga, Phan, Snijder, Eric J., Morita, Kouichi, Gorbalenya, Alexander E., Stern, Adi

Journal:

Year:

2013

Language:

english

File:

PDF, 843 KB

english, 2013

44

DNA methylation signatures link prenatal famine exposure to growth and metabolism

Tobi, Elmar W., Goeman, Jelle J., Monajemi, Ramin, Gu, Hongcang, Putter, Hein, Zhang, Yanju, Slieker, Roderick C., Stok, Arthur P., Thijssen, Peter E., Müller, Fabian, van Zwet, Erik W., Bock, Christo

Journal:

Nature Communications

Year:

2014

Language:

english

File:

PDF, 957 KB

english, 2014

45

Drug Survival Studies in Dermatology:Principles, Purposes, and Pitfalls

van den Reek, Juul M P A, Kievit, Wietske, Gniadecki, Robert, Goeman, Jelle J, Zweegers, Jeffrey, van de Kerkhof, Peter C M, Seyger, Marieke M B, de Jong, Elke M G J

Journal:

The Journal of Investigative Dermatology

Year:

2015

Language:

english

File:

PDF, 224 KB

english, 2015

46

Multiple Testing of Gene Sets from Gene Ontology: Possibilities and Pitfalls

Meijer, Rosa J., Goeman, Jelle J.

Journal:

Briefings in Bioinformatics

Year:

2015

Language:

english

File:

PDF, 664 KB

english, 2015

47

Corrigendum: DNA methylation signatures link prenatal famine exposure to growth and metabolism

Tobi, Elmar W., Goeman, Jelle J., Monajemi, Ramin, Gu, Hongcang, Putter, Hein, Zhang, Yanju, Slieker, Roderick C., Stok, Arthur P., Thijssen, Peter E., Müller, Fabian, van Zwet, Erik W., Bock, Christo

Journal:

Nature Communications

Year:

2015

File:

PDF, 80 KB

2015

48

THE SEQUENTIAL REJECTION PRINCIPLE OF FAMILYWISE ERROR CONTROL

Jelle J. Goeman and Aldo Solari

Journal:

The Annals of Statistics

Year:

2010

Language:

english

File:

PDF, 2.56 MB

english, 2010

49

A global × global test for testing associations between two large sets of variables

Chaturvedi, Nimisha, de Menezes, Renée X., Goeman, Jelle J.

Journal:

Biometrical Journal

Year:

2016

Language:

english

File:

PDF, 850 KB

english, 2016

50

A Cochran-Armitage-type and a score-free global test for multivariate ordinal data

Jelizarow, Monika, Mansmann, Ulrich, Goeman, Jelle J.

Journal:

Statistics in Medicine

Year:

2016

Language:

english

File:

PDF, 316 KB

english, 2016