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Items: 1 to 50 of 78

1.

XenofilteR: computational deconvolution of mouse and human reads in tumor xenograft sequence data.

Kluin RJC, Kemper K, Kuilman T, de Ruiter JR, Iyer V, Forment JV, Cornelissen-Steijger P, de Rink I, Ter Brugge P, Song JY, Klarenbeek S, McDermott U, Jonkers J, Velds A, Adams DJ, Peeper DS, Krijgsman O.

BMC Bioinformatics. 2018 Oct 4;19(1):366. doi: 10.1186/s12859-018-2353-5.

2.

Redefine or justify? Comments on the alpha debate.

de Ruiter J.

Psychon Bull Rev. 2018 Sep 27. doi: 10.3758/s13423-018-1523-9. [Epub ahead of print]

PMID:
30264238
3.

Photothermal trap utilizing solar illumination for ice mitigation.

Dash S, de Ruiter J, Varanasi KK.

Sci Adv. 2018 Aug 31;4(8):eaat0127. doi: 10.1126/sciadv.aat0127. eCollection 2018 Aug.

4.

Transcriptomics and Transposon Mutagenesis Identify Multiple Mechanisms of Resistance to the FGFR Inhibitor AZD4547.

Kas SM, de Ruiter JR, Schipper K, Schut E, Bombardelli L, Wientjens E, Drenth AP, de Korte-Grimmerink R, Mahakena S, Phillips C, Smith PD, Klarenbeek S, van de Wetering K, Berns A, Wessels LFA, Jonkers J.

Cancer Res. 2018 Oct 1;78(19):5668-5679. doi: 10.1158/0008-5472.CAN-18-0757. Epub 2018 Aug 16.

PMID:
30115694
5.

Mouse models in the era of large human tumour sequencing studies.

de Ruiter JR, Wessels LFA, Jonkers J.

Open Biol. 2018 Aug;8(8). pii: 180080. doi: 10.1098/rsob.180080. Review.

6.

Confidence in uncertainty: Error cost and commitment in early speech hypotheses.

Loth S, Jettka K, Giuliani M, Kopp S, de Ruiter JP.

PLoS One. 2018 Aug 1;13(8):e0201516. doi: 10.1371/journal.pone.0201516. eCollection 2018.

7.

Selective Loss of PARG Restores PARylation and Counteracts PARP Inhibitor-Mediated Synthetic Lethality.

Gogola E, Duarte AA, de Ruiter JR, Wiegant WW, Schmid JA, de Bruijn R, James DI, Guerrero Llobet S, Vis DJ, Annunziato S, van den Broek B, Barazas M, Kersbergen A, van de Ven M, Tarsounas M, Ogilvie DJ, van Vugt M, Wessels LFA, Bartkova J, Gromova I, Andújar-Sánchez M, Bartek J, Lopes M, van Attikum H, Borst P, Jonkers J, Rottenberg S.

Cancer Cell. 2018 Jun 11;33(6):1078-1093.e12. doi: 10.1016/j.ccell.2018.05.008.

PMID:
29894693
8.

Editors' Introduction: Miscommunication.

Healey PGT, de Ruiter JP, Mills GJ.

Top Cogn Sci. 2018 Apr;10(2):264-278. doi: 10.1111/tops.12340.

PMID:
29749040
9.

Repair: The Interface Between Interaction and Cognition.

Albert S, de Ruiter JP.

Top Cogn Sci. 2018 Apr;10(2):279-313. doi: 10.1111/tops.12339.

PMID:
29749039
10.

Don't shoot the giant whose shoulders we are standing on.

de Ruiter JP, de Ruiter LE.

Behav Brain Sci. 2017 Jan;40:e286. doi: 10.1017/S0140525X17000346.

PMID:
29342715
11.

Adapting crop rotations to climate change in regional impact modelling assessments.

Teixeira EI, de Ruiter J, Ausseil AG, Daigneault A, Johnstone P, Holmes A, Tait A, Ewert F.

Sci Total Environ. 2018 Mar;616-617:785-795. doi: 10.1016/j.scitotenv.2017.10.247. Epub 2017 Nov 3.

PMID:
29103648
12.

Insertional mutagenesis identifies drivers of a novel oncogenic pathway in invasive lobular breast carcinoma.

Kas SM, de Ruiter JR, Schipper K, Annunziato S, Schut E, Klarenbeek S, Drenth AP, van der Burg E, Klijn C, Ten Hoeve JJ, Adams DJ, Koudijs MJ, Wesseling J, Nethe M, Wessels LFA, Jonkers J.

Nat Genet. 2017 Aug;49(8):1219-1230. doi: 10.1038/ng.3905. Epub 2017 Jun 26.

PMID:
28650484
13.

Identifying transposon insertions and their effects from RNA-sequencing data.

de Ruiter JR, Kas SM, Schut E, Adams DJ, Koudijs MJ, Wessels LFA, Jonkers J.

Nucleic Acids Res. 2017 Jul 7;45(12):7064-7077. doi: 10.1093/nar/gkx461.

14.

How Much Information Do People With Aphasia Convey via Gesture?

de Beer C, Carragher M, van Nispen K, Hogrefe K, de Ruiter JP, Rose ML.

Am J Speech Lang Pathol. 2017 May 17;26(2):483-497. doi: 10.1044/2016_AJSLP-15-0027.

PMID:
28492911
15.

Temporal Preparation for Speaking in Question-Answer Sequences.

Magyari L, De Ruiter JP, Levinson SC.

Front Psychol. 2017 Feb 21;8:211. doi: 10.3389/fpsyg.2017.00211. eCollection 2017.

16.
17.

Erratum: Replication fork stability confers chemoresistance in BRCA-deficient cells.

Chaudhuri AR, Callen E, Ding X, Gogola E, Duarte AA, Lee JE, Wong N, Lafarga V, Calvo JA, Panzarino NJ, John S, Day A, Crespo AV, Shen B, Starnes LM, de Ruiter JR, Daniel JA, Konstantinopoulos PA, Cortez D, Cantor SB, Fernandez-Capetillo O, Ge K, Jonkers J, Rottenberg S, Sharan SK, Nussenzweig A.

Nature. 2016 Nov 17;539(7629):456. doi: 10.1038/nature19826. Epub 2016 Sep 28. No abstract available.

PMID:
27680696
18.

PTEN Loss in E-Cadherin-Deficient Mouse Mammary Epithelial Cells Rescues Apoptosis and Results in Development of Classical Invasive Lobular Carcinoma.

Boelens MC, Nethe M, Klarenbeek S, de Ruiter JR, Schut E, Bonzanni N, Zeeman AL, Wientjens E, van der Burg E, Wessels L, van Amerongen R, Jonkers J.

Cell Rep. 2016 Aug 23;16(8):2087-2101. doi: 10.1016/j.celrep.2016.07.059. Epub 2016 Aug 11.

19.

Replication fork stability confers chemoresistance in BRCA-deficient cells.

Ray Chaudhuri A, Callen E, Ding X, Gogola E, Duarte AA, Lee JE, Wong N, Lafarga V, Calvo JA, Panzarino NJ, John S, Day A, Crespo AV, Shen B, Starnes LM, de Ruiter JR, Daniel JA, Konstantinopoulos PA, Cortez D, Cantor SB, Fernandez-Capetillo O, Ge K, Jonkers J, Rottenberg S, Sharan SK, Nussenzweig A.

Nature. 2016 Jul 21;535(7612):382-7. doi: 10.1038/nature18325. Erratum in: Nature. 2016 Nov 17;539(7629):456.

20.

Mechanisms of Therapy Resistance in Patient-Derived Xenograft Models of BRCA1-Deficient Breast Cancer.

Ter Brugge P, Kristel P, van der Burg E, Boon U, de Maaker M, Lips E, Mulder L, de Ruiter J, Moutinho C, Gevensleben H, Marangoni E, Majewski I, Józwiak K, Kloosterman W, van Roosmalen M, Duran K, Hogervorst F, Turner N, Esteller M, Cuppen E, Wesseling J, Jonkers J.

J Natl Cancer Inst. 2016 Jul 5;108(11). doi: 10.1093/jnci/djw148. Print 2016 Nov.

PMID:
27381626
21.

GC-MS differentiation of the six regioisomeric dimethoxybenzoyl-1-pentylindoles: Isomeric cannabinoid substances.

Abdel-Hay KM, De Ruiter J, Smith F, Alsegiani AS, Thaxton-Weissenfluh A, Clark CR.

J Pharm Biomed Anal. 2016 Jun 5;125:360-8. doi: 10.1016/j.jpba.2016.04.012. Epub 2016 Apr 12.

PMID:
27107854
22.

Editorial: Understanding Social Signals: How Do We Recognize the Intentions of Others?

Loth S, De Ruiter JP.

Front Psychol. 2016 Feb 23;7:281. doi: 10.3389/fpsyg.2016.00281. eCollection 2016. No abstract available.

23.

Postdispersal nepotism in male long-tailed macaques (Macaca fascicularis).

Gerber L, Krützen M, de Ruiter JR, van Schaik CP, van Noordwijk MA.

Ecol Evol. 2015 Dec 8;6(1):46-55. doi: 10.1002/ece3.1839. eCollection 2016 Jan.

24.

Ghost-in-the-Machine reveals human social signals for human-robot interaction.

Loth S, Jettka K, Giuliani M, de Ruiter JP.

Front Psychol. 2015 Nov 4;6:1641. doi: 10.3389/fpsyg.2015.01641. eCollection 2015.

25.

CopywriteR: DNA copy number detection from off-target sequence data.

Kuilman T, Velds A, Kemper K, Ranzani M, Bombardelli L, Hoogstraat M, Nevedomskaya E, Xu G, de Ruiter J, Lolkema MP, Ylstra B, Jonkers J, Rottenberg S, Wessels LF, Adams DJ, Peeper DS, Krijgsman O.

Genome Biol. 2015 Feb 27;16:49. doi: 10.1186/s13059-015-0617-1.

26.

Anticipation in turn-taking: mechanisms and information sources.

Riest C, Jorschick AB, de Ruiter JP.

Front Psychol. 2015 Feb 2;6:89. doi: 10.3389/fpsyg.2015.00089. eCollection 2015.

27.

Clinical Correlates of Co-occurring Psychiatric and Autism Spectrum Disorder (ASD) Symptom-Induced Impairment in Children with ASD.

Gadow KD, Perlman G, Ramdhany L, de Ruiter J.

J Abnorm Child Psychol. 2016 Jan;44(1):129-39. doi: 10.1007/s10802-015-9979-9.

PMID:
25640910
28.

Early anticipation lies behind the speed of response in conversation.

Magyari L, Bastiaansen MC, de Ruiter JP, Levinson SC.

J Cogn Neurosci. 2014 Nov;26(11):2530-9. doi: 10.1162/jocn_a_00673. Epub 2014 Jun 4.

PMID:
24893743
29.

Using the readiness potential of button-press and verbal response within spoken language processing.

Jansen S, Wesselmeier H, de Ruiter JP, Mueller HM.

J Neurosci Methods. 2014 Jul 30;232:24-9. doi: 10.1016/j.jneumeth.2014.04.030. Epub 2014 May 6.

PMID:
24809245
30.

Automatic detection of service initiation signals used in bars.

Loth S, Huth K, De Ruiter JP.

Front Psychol. 2013 Aug 30;4:557. doi: 10.3389/fpsyg.2013.00557. eCollection 2013.

31.

Forward modelling requires intention recognition and non-impoverished predictions.

de Ruiter JP, Cummins C.

Behav Brain Sci. 2013 Aug;36(4):351. doi: 10.1017/S0140525X1200252X. Epub 2013 Jun 24.

PMID:
23789779
32.

The role of scene type and priming in the processing and selection of a spatial frame of reference.

Johannsen K, De Ruiter JP.

Front Psychol. 2013 Apr 10;4:182. doi: 10.3389/fpsyg.2013.00182. eCollection 2013.

33.

Prediction of turn-ends based on anticipation of upcoming words.

Magyari L, de Ruiter JP.

Front Psychol. 2012 Oct 1;3:376. doi: 10.3389/fpsyg.2012.00376. eCollection 2012.

34.

Buoyant droplets on functional fibers.

de Ruiter R, de Ruiter J, Eral HB, Semprebon C, Brinkmann M, Mugele F.

Langmuir. 2012 Sep 18;28(37):13300-6. doi: 10.1021/la302726z. Epub 2012 Sep 4.

PMID:
22924782
35.

Exploiting spatial descriptions in visual scene analysis.

Ziegler L, Johannsen K, Swadzba A, De Ruiter JP, Wachsmuth S.

Cogn Process. 2012 Aug;13 Suppl 1:S369-74. doi: 10.1007/s10339-012-0460-1.

PMID:
22806654
36.

Zen meditation and access to information in the unconscious.

Strick M, van Noorden TH, Ritskes RR, de Ruiter JR, Dijksterhuis A.

Conscious Cogn. 2012 Sep;21(3):1476-81. doi: 10.1016/j.concog.2012.02.010. Epub 2012 Apr 28.

PMID:
22546473
37.

Dynamics of collapse of air films in drop impact.

de Ruiter J, Oh JM, van den Ende D, Mugele F.

Phys Rev Lett. 2012 Feb 17;108(7):074505. Epub 2012 Feb 17.

PMID:
22401211
38.

The interplay between gesture and speech in the production of referring expressions: investigating the tradeoff hypothesis.

de Ruiter JP, Bangerter A, Dings P.

Top Cogn Sci. 2012 Apr;4(2):232-48. doi: 10.1111/j.1756-8765.2012.01183.x. Epub 2012 Mar 2.

39.

Dunbar's number: group size and brain physiology in humans reexamined.

de Ruiter J, Weston G, Lyon SM.

Am Anthropol. 2011;113(4):557-68.

PMID:
22216422
40.

Observation of tool use and modification for apparent hygiene purposes in a mandrill.

Pansini R, de Ruiter JR.

Behav Processes. 2011 Sep;88(1):53-5. doi: 10.1016/j.beproc.2011.06.003. Epub 2011 Jul 6.

PMID:
21740959
41.

Does lactate-guided therapy really improve outcome?

de Ruiter J, Zijlstra JG, Ligtenberg JJ.

Am J Respir Crit Care Med. 2011 Mar 1;183(5):680; author reply 680-1. No abstract available.

PMID:
21471058
42.

Use of ultrasound-guided subcostal transversus abdominis plane blocks in a pediatric patient with chronic abdominal wall pain.

Simpson DM, Tyrrell J, De Ruiter J, Campbell FA.

Paediatr Anaesth. 2011 Jan;21(1):88-90. doi: 10.1111/j.1460-9592.2010.03471.x. No abstract available.

PMID:
21155932
43.

Neural correlates of intentional communication.

Noordzij ML, Newman-Norlund SE, de Ruiter JP, Hagoort P, Levinson SC, Toni I.

Front Neurosci. 2010 Dec 8;4:188. doi: 10.3389/fnins.2010.00188. eCollection 2010.

44.

A dissociation between linguistic and communicative abilities in the human brain.

Willems RM, de Boer M, de Ruiter JP, Noordzij ML, Hagoort P, Toni I.

Psychol Sci. 2010 Jan;21(1):8-14. doi: 10.1177/0956797609355563. Epub 2009 Dec 10.

PMID:
20424015
45.

Eyetracking for two-person tasks with manipulation of a virtual world.

Carletta J, Hill RL, Nicol C, Taylor T, de Ruiter JP, Bard EG.

Behav Res Methods. 2010 Feb;42(1):254-65. doi: 10.3758/BRM.42.1.254.

PMID:
20160304
46.

Effects of a 3-month course of rosuvastatin in patients with systemic lupus erythematosus.

de Kruif MD, Limper M, Hansen HR, de Ruiter J, Spek CA, van Gorp EC, ten Berge IJ, Rowshani AT, ten Cate H, Meesters EW.

Ann Rheum Dis. 2009 Oct;68(10):1654. doi: 10.1136/ard.2009.109405. No abstract available.

PMID:
19748921
47.

The epidemiology of intra-abdominal flora in critically ill patients with secondary and tertiary abdominal sepsis.

de Ruiter J, Weel J, Manusama E, Kingma WP, van der Voort PH.

Infection. 2009 Dec;37(6):522-7. doi: 10.1007/s15010-009-8249-6.

PMID:
19669089
48.

Brain mechanisms underlying human communication.

Noordzij ML, Newman-Norlund SE, de Ruiter JP, Hagoort P, Levinson SC, Toni I.

Front Hum Neurosci. 2009 Jul 30;3:14. doi: 10.3389/neuro.09.014.2009. eCollection 2009.

49.

Universals and cultural variation in turn-taking in conversation.

Stivers T, Enfield NJ, Brown P, Englert C, Hayashi M, Heinemann T, Hoymann G, Rossano F, de Ruiter JP, Yoon KE, Levinson SC.

Proc Natl Acad Sci U S A. 2009 Jun 30;106(26):10587-92. doi: 10.1073/pnas.0903616106. Epub 2009 Jun 24.

50.

Furosemide does not improve renal recovery after hemofiltration for acute renal failure in critically ill patients: a double blind randomized controlled trial.

van der Voort PH, Boerma EC, Koopmans M, Zandberg M, de Ruiter J, Gerritsen RT, Egbers PH, Kingma WP, Kuiper MA.

Crit Care Med. 2009 Feb;37(2):533-8. doi: 10.1097/CCM.0b013e318195424d.

PMID:
19114909

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