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Items: 1 to 50 of 94

1.

Who is afraid of non-normal data? Choosing between parametric and non-parametric tests.

le Cessie S, Goeman JJ, Dekkers OM.

Eur J Endocrinol. 2020 Feb;182(2):E1-E3. doi: 10.1530/EJE-19-0922.

PMID:
31910149
2.

Whole blood RNA signatures in leprosy patients identify reversal reactions before clinical onset: a prospective, multicenter study.

Tió-Coma M, van Hooij A, Bobosha K, van der Ploeg-van Schip JJ, Banu S, Khadge S, Thapa P, Kunwar CB, Goulart IM, Bekele Y, Hagge DA, Moraes MO, Teles RMB, Pinheiro RO, van Zwet EW, Goeman JJ, Aseffa A, Haks MC, Ottenhoff THM, Modlin RL, Geluk A.

Sci Rep. 2019 Nov 29;9(1):17931. doi: 10.1038/s41598-019-54213-y.

3.

The harmonic mean p-value: Strong versus weak control, and the assumption of independence.

Goeman JJ, Rosenblatt JD, Nichols TE.

Proc Natl Acad Sci U S A. 2019 Nov 19;116(47):23382-23383. doi: 10.1073/pnas.1909339116. Epub 2019 Oct 29. No abstract available.

PMID:
31662466
4.

Better-than-chance classification for signal detection.

Rosenblatt JD, Benjamini Y, Gilron R, Mukamel R, Goeman JJ.

Biostatistics. 2019 Oct 14. pii: kxz035. doi: 10.1093/biostatistics/kxz035. [Epub ahead of print]

PMID:
31612223
5.

Search for Early Pancreatic Cancer Blood Biomarkers in Five European Prospective Population Biobanks Using Metabolomics.

Fest J, Vijfhuizen LS, Goeman JJ, Veth O, Joensuu A, Perola M, Männistö S, Ness-Jensen E, Hveem K, Haller T, Tonisson N, Mikkel K, Metspalu A, van Duijn CM, Ikram A, Stricker BH, Ruiter R, van Eijck CHJ, van Ommen GB, ʼt Hoen PAC.

Endocrinology. 2019 Jul 1;160(7):1731-1742. doi: 10.1210/en.2019-00165.

6.

Large-scale plasma metabolome analysis reveals alterations in HDL metabolism in migraine.

Onderwater GLJ, Ligthart L, Bot M, Demirkan A, Fu J, van der Kallen CJH, Vijfhuizen LS, Pool R, Liu J, Vanmolkot FHM, Beekman M, Wen KX, Amin N, Thesing CS, Pijpers JA, Kies DA, Zielman R, de Boer I, van Greevenbroek MMJ, Arts ICW, Milaneschi Y, Schram MT, Dagnelie PC, Franke L, Ikram MA, Ferrari MD, Goeman JJ, Slagboom PE, Wijmenga C, Stehouwer CDA, Boomsma DI, van Duijn CM, Penninx BW, 't Hoen PAC, Terwindt GM, van den Maagdenberg AMJM; BBMRI Metabolomics Consortium.

Neurology. 2019 Apr 16;92(16):e1899-e1911. doi: 10.1212/WNL.0000000000007313. Epub 2019 Apr 3.

7.

Deacetylation Inhibition Reverses PABPN1-Dependent Muscle Wasting.

Olie CS, Riaz M, Konietzny R, Charles PD, Pinto-Fernandez A, Kiełbasa SM, Aartsma-Rus A, Goeman JJ, Kessler BM, Raz V.

iScience. 2019 Feb 22;12:318-332. doi: 10.1016/j.isci.2019.01.024. Epub 2019 Jan 22.

8.

Tissue-sparing properties of Mohs micrographic surgery for infiltrative basal cell carcinoma.

van Kester MS, Goeman JJ, Genders RE.

J Am Acad Dermatol. 2019 Jun;80(6):1700-1703. doi: 10.1016/j.jaad.2019.01.057. Epub 2019 Jan 31.

PMID:
30710602
9.

A multicenter comparison of quantification methods for antisense oligonucleotide-induced DMD exon 51 skipping in Duchenne muscular dystrophy cell cultures.

Hiller M, Falzarano MS, Garcia-Jimenez I, Sardone V, Verheul RC, Popplewell L, Anthony K, Ruiz-Del-Yerro E, Osman H, Goeman JJ, Mamchaoui K, Dickson G, Ferlini A, Muntoni F, Aartsma-Rus A, Arechavala-Gomeza V, Datson NA, Spitali P.

PLoS One. 2018 Oct 2;13(10):e0204485. doi: 10.1371/journal.pone.0204485. eCollection 2018.

10.

Gaining power in multiple testing of interval hypotheses via conditionalization.

Ellis JL, Pecanka J, Goeman JJ.

Biostatistics. 2018 Sep 21. doi: 10.1093/biostatistics/kxy042. [Epub ahead of print]

PMID:
30247521
11.

Hommel's procedure in linear time.

Meijer RJ, Krebs TJP, Goeman JJ.

Biom J. 2019 Jan;61(1):73-82. doi: 10.1002/bimj.201700316. Epub 2018 Sep 5.

PMID:
30187522
12.

Cross-laboratory evaluation of multiplex bead assays including independent common reference standards for immunological monitoring of observational and interventional human studies.

van Meijgaarden KE, Khatri B, Smith SG, Drittij AMFH, de Paus RA, Goeman JJ, Ho MM, Dockrell HM, McShane H, Joosten SA, Ottenhoff THM.

PLoS One. 2018 Sep 4;13(9):e0201205. doi: 10.1371/journal.pone.0201205. eCollection 2018.

13.

Postmortem T2*- Weighted MRI Imaging of Cortical Iron Reflects Severity of Alzheimer's Disease.

Bulk M, Kenkhuis B, van der Graaf LM, Goeman JJ, Natté R, van der Weerd L.

J Alzheimers Dis. 2018;65(4):1125-1137. doi: 10.3233/JAD-180317.

14.

A test for detecting differential indirect trans effects between two groups of samples.

Chaturvedi N, Menezes RX, Goeman JJ, Wieringen WV.

Stat Appl Genet Mol Biol. 2018 Jul 31;17(5). pii: /j/sagmb.2018.17.issue-5/sagmb-2017-0058/sagmb-2017-0058.xml. doi: 10.1515/sagmb-2017-0058.

PMID:
30059350
15.

All-Resolutions Inference for brain imaging.

Rosenblatt JD, Finos L, Weeda WD, Solari A, Goeman JJ.

Neuroimage. 2018 Nov 1;181:786-796. doi: 10.1016/j.neuroimage.2018.07.060. Epub 2018 Jul 27.

PMID:
30056198
16.

Impact of congenital cytomegalovirus infection on transcriptomes from archived dried blood spots in relation to long-term clinical outcome.

Rovito R, Warnatz HJ, Kiełbasa SM, Mei H, Amstislavskiy V, Arens R, Yaspo ML, Lehrach H, Kroes ACM, Goeman JJ, Vossen ACTM.

PLoS One. 2018 Jul 19;13(7):e0200652. doi: 10.1371/journal.pone.0200652. eCollection 2018.

17.

Transcriptional profiling and biomarker identification reveal tissue specific effects of expanded ataxin-3 in a spinocerebellar ataxia type 3 mouse model.

Toonen LJA, Overzier M, Evers MM, Leon LG, van der Zeeuw SAJ, Mei H, Kielbasa SM, Goeman JJ, Hettne KM, Magnusson OT, Poirel M, Seyer A, 't Hoen PAC, van Roon-Mom WMC.

Mol Neurodegener. 2018 Jun 22;13(1):31. doi: 10.1186/s13024-018-0261-9.

18.

MAGE-A3 immunotherapeutic as adjuvant therapy for patients with resected, MAGE-A3-positive, stage III melanoma (DERMA): a double-blind, randomised, placebo-controlled, phase 3 trial.

Dreno B, Thompson JF, Smithers BM, Santinami M, Jouary T, Gutzmer R, Levchenko E, Rutkowski P, Grob JJ, Korovin S, Drucis K, Grange F, Machet L, Hersey P, Krajsova I, Testori A, Conry R, Guillot B, Kruit WHJ, Demidov L, Thompson JA, Bondarenko I, Jaroszek J, Puig S, Cinat G, Hauschild A, Goeman JJ, van Houwelingen HC, Ulloa-Montoya F, Callegaro A, Dizier B, Spiessens B, Debois M, Brichard VG, Louahed J, Therasse P, Debruyne C, Kirkwood JM.

Lancet Oncol. 2018 Jul;19(7):916-929. doi: 10.1016/S1470-2045(18)30254-7. Epub 2018 Jun 13.

PMID:
29908991
19.

Quantitative comparison of different iron forms in the temporal cortex of Alzheimer patients and control subjects.

Bulk M, van der Weerd L, Breimer W, Lebedev N, Webb A, Goeman JJ, Ward RJ, Huber M, Oosterkamp TH, Bossoni L.

Sci Rep. 2018 May 2;8(1):6898. doi: 10.1038/s41598-018-25021-7.

20.

Cross-sectional serum metabolomic study of multiple forms of muscular dystrophy.

Spitali P, Hettne K, Tsonaka R, Sabir E, Seyer A, Hemerik JBA, Goeman JJ, Picillo E, Ergoli M, Politano L, Aartsma-Rus A.

J Cell Mol Med. 2018 Apr;22(4):2442-2448. doi: 10.1111/jcmm.13543. Epub 2018 Feb 14.

21.

Investigating the validity of the DN4 in a consecutive population of patients with chronic pain.

Timmerman H, Steegers MAH, Huygen FJPM, Goeman JJ, van Dasselaar NT, Schenkels MJ, Wilder-Smith OHG, Wolff AP, Vissers KCP.

PLoS One. 2017 Nov 30;12(11):e0187961. doi: 10.1371/journal.pone.0187961. eCollection 2017.

22.

Deep characterization of a common D4Z4 variant identifies biallelic DUX4 expression as a modifier for disease penetrance in FSHD2.

Lemmers RJ, van der Vliet PJ, Balog J, Goeman JJ, Arindrarto W, Krom YD, Straasheijm KR, Debipersad RD, Özel G, Sowden J, Snider L, Mul K, Sacconi S, van Engelen B, Tapscott SJ, Tawil R, van der Maarel SM.

Eur J Hum Genet. 2018 Jan;26(1):94-106. doi: 10.1038/s41431-017-0015-0. Epub 2017 Nov 21.

23.

Human papillomavirus and posttransplantation cutaneous squamous cell carcinoma: A multicenter, prospective cohort study.

Bouwes Bavinck JN, Feltkamp MCW, Green AC, Fiocco M, Euvrard S, Harwood CA, Nasir S, Thomson J, Proby CM, Naldi L, Diphoorn JCD, Venturuzzo A, Tessari G, Nindl I, Sampogna F, Abeni D, Neale RE, Goeman JJ, Quint KD, Halk AB, Sneek C, Genders RE, de Koning MNC, Quint WGV, Wieland U, Weissenborn S, Waterboer T, Pawlita M, Pfister H; EPI-HPV-UV-CA group.

Am J Transplant. 2018 May;18(5):1220-1230. doi: 10.1111/ajt.14537. Epub 2017 Nov 22.

24.

Unraveling genetic predisposition to familial or early onset gastric cancer using germline whole-exome sequencing.

Vogelaar IP, van der Post RS, van Krieken JHJ, Spruijt L, van Zelst-Stams WA, Kets CM, Lubinski J, Jakubowska A, Teodorczyk U, Aalfs CM, van Hest LP, Pinheiro H, Oliveira C, Jhangiani SN, Muzny DM, Gibbs RA, Lupski JR, de Ligt J, Vissers LELM, Hoischen A, Gilissen C, van de Vorst M, Goeman JJ, Schackert HK, Ranzani GN, Molinaro V, Gómez García EB, Hes FJ, Holinski-Feder E, Genuardi M, Ausems MGEM, Sijmons RH, Wagner A, van der Kolk LE, Bjørnevoll I, Høberg-Vetti H, van Kessel AG, Kuiper RP, Ligtenberg MJL, Hoogerbrugge N.

Eur J Hum Genet. 2017 Nov;25(11):1246-1252. doi: 10.1038/ejhg.2017.138. Epub 2017 Sep 6.

25.

Blinded histopathological characterisation of POLE exonuclease domain-mutant endometrial cancers: sheep in wolf's clothing.

Van Gool IC, Ubachs JEH, Stelloo E, de Kroon CD, Goeman JJ, Smit VTHBM, Creutzberg CL, Bosse T.

Histopathology. 2018 Jan;72(2):248-258. doi: 10.1111/his.13338. Epub 2017 Oct 10.

PMID:
28795426
26.

Contribution to the discussion of "A critical evaluation of the current 'p-value controversy"'.

Goeman JJ.

Biom J. 2017 Sep;59(5):884-885. doi: 10.1002/bimj.201700028. Epub 2017 Apr 25. No abstract available.

PMID:
28440065
27.

Quantification of Phenotype Information Aids the Identification of Novel Disease Genes.

Vulto-van Silfhout AT, Gilissen C, Goeman JJ, Jansen S, van Amen-Hellebrekers CJM, van Bon BWM, Koolen DA, Sistermans EA, Brunner HG, de Brouwer APM, de Vries BBA.

Hum Mutat. 2017 May;38(5):594-599. doi: 10.1002/humu.23176. Epub 2017 Feb 2.

PMID:
28074630
28.

What (not) to expect when classifying rare events.

Blagus R, Goeman JJ.

Brief Bioinform. 2018 Mar 1;19(2):341-349. doi: 10.1093/bib/bbw107.

PMID:
27881432
29.

Plea for routinely presenting prediction intervals in meta-analysis.

IntHout J, Ioannidis JP, Rovers MM, Goeman JJ.

BMJ Open. 2016 Jul 12;6(7):e010247. doi: 10.1136/bmjopen-2015-010247.

30.

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

Chaturvedi N, de Menezes RX, Goeman JJ.

Biom J. 2017 Jan;59(1):145-158. doi: 10.1002/bimj.201500106. Epub 2016 May 25.

PMID:
27225065
31.

Minimally adaptive BH: A tiny but uniform improvement of the procedure of Benjamini and Hochberg.

Solari A, Goeman JJ.

Biom J. 2017 Jul;59(4):776-780. doi: 10.1002/bimj.201500253. Epub 2016 May 18.

PMID:
27192178
32.

Microarray Gene Expression Analysis to Evaluate Cell Type Specific Expression of Targets Relevant for Immunotherapy of Hematological Malignancies.

Pont MJ, Honders MW, Kremer AN, van Kooten C, Out C, Hiemstra PS, de Boer HC, Jager MJ, Schmelzer E, Vries RG, Al Hinai AS, Kroes WG, Monajemi R, Goeman JJ, Böhringer S, Marijt WA, Falkenburg JH, Griffioen M.

PLoS One. 2016 May 12;11(5):e0155165. doi: 10.1371/journal.pone.0155165. eCollection 2016.

33.

Epigenomic Analysis of Sézary Syndrome Defines Patterns of Aberrant DNA Methylation and Identifies Diagnostic Markers.

van Doorn R, Slieker RC, Boonk SE, Zoutman WH, Goeman JJ, Bagot M, Michel L, Tensen CP, Willemze R, Heijmans BT, Vermeer MH.

J Invest Dermatol. 2016 Sep;136(9):1876-1884. doi: 10.1016/j.jid.2016.03.042. Epub 2016 Apr 23. Review.

34.

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

Jelizarow M, Mansmann U, Goeman JJ.

Stat Med. 2016 Jul 20;35(16):2754-69. doi: 10.1002/sim.6898. Epub 2016 Feb 28.

PMID:
26924287
35.

Analysing multiple types of molecular profiles simultaneously: connecting the needles in the haystack.

Menezes RX, Mohammadi L, Goeman JJ, Boer JM.

BMC Bioinformatics. 2016 Feb 9;17:77. doi: 10.1186/s12859-016-0926-8.

36.

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

Meijer RJ, Goeman JJ.

Brief Bioinform. 2016 Sep;17(5):808-18. doi: 10.1093/bib/bbv091. Epub 2015 Oct 7.

PMID:
26446060
37.

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

Tobi EW, Goeman JJ, Monajemi R, Gu H, Putter H, Zhang Y, Slieker RC, Stok AP, Thijssen PE, Müller F, van Zwet EW, Bock C, Meissner A, Lumey LH, Eline Slagboom P, Heijmans BT.

Nat Commun. 2015 Jul 7;6:7740. doi: 10.1038/ncomms8740. No abstract available.

38.

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

van den Reek JMPA, Kievit W, Gniadecki R, Goeman JJ, Zweegers J, van de Kerkhof PCM, Seyger MMB, de Jong EMGJ.

J Invest Dermatol. 2015 Jul;135(7):1-5. doi: 10.1038/jid.2015.171. Review. No abstract available.

39.

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 AH, Wannee KF, Scholte FE, Goeman JJ, Ten Dijke P, Snijder EJ, Kikkert M, van Hemert MJ.

J Virol. 2015 Aug;89(16):8318-33. doi: 10.1128/JVI.01029-15. Epub 2015 Jun 3.

40.

KeyGenes, a Tool to Probe Tissue Differentiation Using a Human Fetal Transcriptional Atlas.

Roost MS, van Iperen L, Ariyurek Y, Buermans HP, Arindrarto W, Devalla HD, Passier R, Mummery CL, Carlotti F, de Koning EJ, van Zwet EW, Goeman JJ, Chuva de Sousa Lopes SM.

Stem Cell Reports. 2015 Jun 9;4(6):1112-24. doi: 10.1016/j.stemcr.2015.05.002. Epub 2015 May 28.

41.

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

IntHout J, Ioannidis JP, Borm GF, Goeman JJ.

J Clin Epidemiol. 2015 Aug;68(8):860-9. doi: 10.1016/j.jclinepi.2015.03.017. Epub 2015 Apr 2.

42.

Focused human gene expression profiling using dual-color reverse transcriptase multiplex ligation-dependent probe amplification.

Haks MC, Goeman JJ, Magis-Escurra C, Ottenhoff TH.

Vaccine. 2015 Sep 29;33(40):5282-8. doi: 10.1016/j.vaccine.2015.04.054. Epub 2015 Apr 24.

PMID:
25917681
43.

Assessing the translational landscape of myogenic differentiation by ribosome profiling.

de Klerk E, Fokkema IF, Thiadens KA, Goeman JJ, Palmblad M, den Dunnen JT, von Lindern M, 't Hoen PA.

Nucleic Acids Res. 2015 May 19;43(9):4408-28. doi: 10.1093/nar/gkv281. Epub 2015 Apr 14.

44.

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

Mastrokolias A, Ariyurek Y, Goeman JJ, van Duijn E, Roos RA, van der Mast RC, van Ommen GB, den Dunnen JT, 't Hoen PA, van Roon-Mom WM.

Eur J Hum Genet. 2015 Oct;23(10):1349-56. doi: 10.1038/ejhg.2014.281. Epub 2015 Jan 28.

45.

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

Meijer RJ, Krebs TJ, Goeman JJ.

Stat Appl Genet Mol Biol. 2015 Feb;14(1):1-19. doi: 10.1515/sagmb-2013-0075.

PMID:
25525753
46.

DNA methylation signatures link prenatal famine exposure to growth and metabolism.

Tobi EW, Goeman JJ, Monajemi R, Gu H, Putter H, Zhang Y, Slieker RC, Stok AP, Thijssen PE, Müller F, van Zwet EW, Bock C, Meissner A, Lumey LH, Eline Slagboom P, Heijmans BT.

Nat Commun. 2014 Nov 26;5:5592. doi: 10.1038/ncomms6592. Erratum in: Nat Commun. 2015;6:7740.

47.

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

Meijer RJ, Goeman JJ.

Biom J. 2015 Jan;57(1):123-43. doi: 10.1002/bimj.201300253. Epub 2014 Nov 13.

PMID:
25394320
48.

MicroRNA classifier and nomogram for metastasis prediction in colon cancer.

Goossens-Beumer IJ, Derr RS, Buermans HP, Goeman JJ, Böhringer S, Morreau H, Nitsche U, Janssen KP, van de Velde CJ, Kuppen PJ.

Cancer Epidemiol Biomarkers Prev. 2015 Jan;24(1):187-97. doi: 10.1158/1055-9965.EPI-14-0544-T. Epub 2014 Oct 14.

49.

An alternative approach to multiple testing for methylation QTL mapping reduces the proportion of falsely identified CpGs.

Luijk R, Goeman JJ, Slagboom EP, Heijmans BT, van Zwet EW.

Bioinformatics. 2015 Feb 1;31(3):340-5. doi: 10.1093/bioinformatics/btu654. Epub 2014 Oct 4.

PMID:
25282645
50.

Rotation-based multiple testing in the multivariate linear model.

Solari A, Finos L, Goeman JJ.

Biometrics. 2014 Dec;70(4):954-61. doi: 10.1111/biom.12238. Epub 2014 Sep 30.

PMID:
25269416

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