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Items: 47

1.

Clinical and genetic landscape of treatment naive cervical cancer: Alterations in PIK3CA and in epigenetic modulators associated with sub-optimal outcome.

Scholl S, Popovic M, de la Rochefordiere A, Girard E, Dureau S, Mandic A, Koprivsek K, Samet N, Craina M, Margan M, Samuels S, Zijlmans H, Kenter G, Hillemanns P, Dema S, Dema A, Malenkovic G, Djuran B, Floquet A, Garbay D, Guyon F, Colombo PE, Fabbro M, Kerr C, Ngo C, Lecuru F, Campo ERD, Coutant C, Marchal F, Mesgouez-Nebout N, Fourchotte V, Feron JG, Morice P, Deutsch E, Wimberger P, Classe JM, Gleeson N, von der Leyen H, Minsat M, Dubot C, Gestraud P, Kereszt A, Nagy I, Balint B, Berns E, Jordanova E, Saint-Jorre N, Savignoni A, Servant N, Hupe P, de Koning L, Fumoleau P, Rouzier R, Kamal M.

EBioMedicine. 2019 May;43:253-260. doi: 10.1016/j.ebiom.2019.03.069. Epub 2019 Apr 2.

2.

ART-DeCo: easy tool for detection and characterization of cross-contamination of DNA samples in diagnostic next-generation sequencing analysis.

Fiévet A, Bernard V, Tenreiro H, Dehainault C, Girard E, Deshaies V, Hupe P, Delattre O, Stern MH, Stoppa-Lyonnet D, Golmard L, Houdayer C.

Eur J Hum Genet. 2019 May;27(5):792-800. doi: 10.1038/s41431-018-0317-x. Epub 2019 Jan 25.

PMID:
30683922
3.

Assessment of the novel online delineation workshop dummy run approach using FALCON within a European multicentre trial in cervical cancer (RAIDs).

Rivin Del Campo E, Rivera S, Martínez-Paredes M, Hupé P, Slocker Escarpa A, Borget I, Mazeron R, Scholl S, Palacios Eito A, Haie-Meder C, Chargari C, Deutsch E.

Radiother Oncol. 2017 Jul;124(1):130-138. doi: 10.1016/j.radonc.2017.05.008. Epub 2017 May 19.

PMID:
28532608
4.

Spatiotemporal control of interferon-induced JAK/STAT signalling and gene transcription by the retromer complex.

Chmiest D, Sharma N, Zanin N, Viaris de Lesegno C, Shafaq-Zadah M, Sibut V, Dingli F, Hupé P, Wilmes S, Piehler J, Loew D, Johannes L, Schreiber G, Lamaze C.

Nat Commun. 2016 Dec 5;7:13476. doi: 10.1038/ncomms13476.

5.

Precision medicine in cancer: challenges and recommendations from an EU-funded cervical cancer biobanking study.

Samuels S, Balint B, von der Leyen H, Hupé P, de Koning L, Kamoun C, Luscap-Rondof W, Wittkop U, Bagrintseva K, Popovic M, Kereszt A, Berns E, Kenter GG, Jordanova ES, Kamal M, Scholl S.

Br J Cancer. 2016 Dec 6;115(12):1575-1583. doi: 10.1038/bjc.2016.340. Epub 2016 Nov 22.

6.

Whole-genome profiling helps to classify phyllodes tumours of the breast.

Laé M, La Rosa P, Mandel J, Reyal F, Hupé P, Terrier P, Couturier J.

J Clin Pathol. 2016 Dec;69(12):1081-1087. doi: 10.1136/jclinpath-2016-203684. Epub 2016 May 20.

PMID:
27207013
7.

From prospective biobanking to precision medicine: BIO-RAIDs - an EU study protocol in cervical cancer.

Ngo C, Samuels S, Bagrintseva K, Slocker A, Hupé P, Kenter G, Popovic M, Samet N, Tresca P, von der Leyen H, Deutsch E, Rouzier R, Belin L, Kamal M, Scholl S; RAIDs consortium http://www.raids-fp7.eu/.

BMC Cancer. 2015 Nov 4;15:842. doi: 10.1186/s12885-015-1801-0.

8.

Using Transcriptional Signatures to Assess Immune Cell Function: From Basic Mechanisms to Immune-Related Disease.

Touzot M, Dahirel A, Cappuccio A, Segura E, Hupé P, Soumelis V.

J Mol Biol. 2015 Oct 23;427(21):3356-67. doi: 10.1016/j.jmb.2015.05.006. Epub 2015 May 15. Review.

PMID:
25986308
9.

Combinatorial code governing cellular responses to complex stimuli.

Cappuccio A, Zollinger R, Schenk M, Walczak A, Servant N, Barillot E, Hupé P, Modlin RL, Soumelis V.

Nat Commun. 2015 Apr 21;6:6847. doi: 10.1038/ncomms7847.

10.

Histo-genomic stratification reveals the frequent amplification/overexpression of CCNE1 and BRD4 genes in non-BRCAness high grade ovarian carcinoma.

Goundiam O, Gestraud P, Popova T, De la Motte Rouge T, Fourchotte V, Gentien D, Hupé P, Becette V, Houdayer C, Roman-Roman S, Stern MH, Sastre-Garau X.

Int J Cancer. 2015 Oct 15;137(8):1890-900. doi: 10.1002/ijc.29568. Epub 2015 Apr 29.

11.

Ultrahigh dose-rate FLASH irradiation increases the differential response between normal and tumor tissue in mice.

Favaudon V, Caplier L, Monceau V, Pouzoulet F, Sayarath M, Fouillade C, Poupon MF, Brito I, Hupé P, Bourhis J, Hall J, Fontaine JJ, Vozenin MC.

Sci Transl Med. 2014 Jul 16;6(245):245ra93. doi: 10.1126/scitranslmed.3008973.

12.

Multi-factor data normalization enables the detection of copy number aberrations in amplicon sequencing data.

Boeva V, Popova T, Lienard M, Toffoli S, Kamal M, Le Tourneau C, Gentien D, Servant N, Gestraud P, Rio Frio T, Hupé P, Barillot E, Laes JF.

Bioinformatics. 2014 Dec 15;30(24):3443-50. doi: 10.1093/bioinformatics/btu436. Epub 2014 Jul 12.

13.

[Biological network modelling and precision medicine in oncology].

Calzone L, Kuperstein I, Cohen D, Grieco L, Bonnet E, Servant N, Hupé P, Zinovyev A, Barillot E.

Bull Cancer. 2014 Jun;101 Suppl 1:S18-21. doi: 10.1684/bdc.2014.1973. Review. French.

PMID:
24966078
14.

Bioinformatics for precision medicine in oncology: principles and application to the SHIVA clinical trial.

Servant N, Roméjon J, Gestraud P, La Rosa P, Lucotte G, Lair S, Bernard V, Zeitouni B, Coffin F, Jules-Clément G, Yvon F, Lermine A, Poullet P, Liva S, Pook S, Popova T, Barette C, Prud'homme F, Dick JG, Kamal M, Le Tourneau C, Barillot E, Hupé P.

Front Genet. 2014 May 30;5:152. doi: 10.3389/fgene.2014.00152. eCollection 2014. Review.

15.

Proteomic screening identifies a YAP-driven signaling network linked to tumor cell proliferation in human schwannomas.

Boin A, Couvelard A, Couderc C, Brito I, Filipescu D, Kalamarides M, Bedossa P, De Koning L, Danelsky C, Dubois T, Hupé P, Louvard D, Lallemand D.

Neuro Oncol. 2014 Sep;16(9):1196-209. doi: 10.1093/neuonc/nou020. Epub 2014 Feb 20.

16.

Stability-based comparison of class discovery methods for DNA copy number profiles.

Brito I, Hupé P, Neuvial P, Barillot E.

PLoS One. 2013 Dec 5;8(12):e81458. doi: 10.1371/journal.pone.0081458. eCollection 2013.

17.

Patient-derived xenografts recapitulate molecular features of human uveal melanomas.

Laurent C, Gentien D, Piperno-Neumann S, Némati F, Nicolas A, Tesson B, Desjardins L, Mariani P, Rapinat A, Sastre-Garau X, Couturier J, Hupé P, de Koning L, Dubois T, Roman-Roman S, Stern MH, Barillot E, Harbour JW, Saule S, Decaudin D.

Mol Oncol. 2013 Jun;7(3):625-36. doi: 10.1016/j.molonc.2013.02.004. Epub 2013 Feb 26.

18.

Telomere crisis in kidney epithelial cells promotes the acquisition of a microRNA signature retrieved in aggressive renal cell carcinomas.

Castro-Vega LJ, Jouravleva K, Liu WY, Martinez C, Gestraud P, Hupé P, Servant N, Albaud B, Gentien D, Gad S, Richard S, Bacchetti S, Londoño-Vallejo A.

Carcinogenesis. 2013 May;34(5):1173-80. doi: 10.1093/carcin/bgt029. Epub 2013 Jan 27.

PMID:
23358853
19.

Independent transcriptional reprogramming and apoptosis induction by cisplatin.

Galluzzi L, Vitale I, Senovilla L, Eisenberg T, Carmona-Gutierrez D, Vacchelli E, Robert T, Ripoche H, Jägemann N, Paccard C, Servant N, Hupé P, Lazar V, Dessen P, Barillot E, Zischka H, Madeo F, Kroemer G.

Cell Cycle. 2012 Sep 15;11(18):3472-80. doi: 10.4161/cc.21789. Epub 2012 Aug 23.

20.

Prognostic impact of vitamin B6 metabolism in lung cancer.

Galluzzi L, Vitale I, Senovilla L, Olaussen KA, Pinna G, Eisenberg T, Goubar A, Martins I, Michels J, Kratassiouk G, Carmona-Gutierrez D, Scoazec M, Vacchelli E, Schlemmer F, Kepp O, Shen S, Tailler M, Niso-Santano M, Morselli E, Criollo A, Adjemian S, Jemaà M, Chaba K, Pailleret C, Michaud M, Pietrocola F, Tajeddine N, de La Motte Rouge T, Araujo N, Morozova N, Robert T, Ripoche H, Commo F, Besse B, Validire P, Fouret P, Robin A, Dorvault N, Girard P, Gouy S, Pautier P, Jägemann N, Nickel AC, Marsili S, Paccard C, Servant N, Hupé P, Behrens C, Behnam-Motlagh P, Kohno K, Cremer I, Damotte D, Alifano M, Midttun O, Ueland PM, Lazar V, Dessen P, Zischka H, Chatelut E, Castedo M, Madeo F, Barillot E, Thomale J, Wistuba II, Sautès-Fridman C, Zitvogel L, Soria JC, Harel-Bellan A, Kroemer G.

Cell Rep. 2012 Aug 30;2(2):257-69. doi: 10.1016/j.celrep.2012.06.017. Epub 2012 Jul 26.

21.

Spi-1/PU.1 activates transcription through clustered DNA occupancy in erythroleukemia.

Ridinger-Saison M, Boeva V, Rimmelé P, Kulakovskiy I, Gallais I, Levavasseur B, Paccard C, Legoix-Né P, Morlé F, Nicolas A, Hupé P, Barillot E, Moreau-Gachelin F, Guillouf C.

Nucleic Acids Res. 2012 Oct;40(18):8927-41. doi: 10.1093/nar/gks659. Epub 2012 Jul 11.

22.

NormaCurve: a SuperCurve-based method that simultaneously quantifies and normalizes reverse phase protein array data.

Troncale S, Barbet A, Coulibaly L, Henry E, He B, Barillot E, Dubois T, Hupé P, de Koning L.

PLoS One. 2012;7(6):e38686. doi: 10.1371/journal.pone.0038686. Epub 2012 Jun 28.

23.

Multiple-checkpoint inhibition of thymic stromal lymphopoietin-induced TH2 response by TH17-related cytokines.

Bogiatzi SI, Guillot-Delost M, Cappuccio A, Bichet JC, Chouchane-Mlik O, Donnadieu MH, Barillot E, Hupé P, Chlichlia K, Efremidou EI, Aractingi S, Bayrou O, Soumelis V.

J Allergy Clin Immunol. 2012 Jul;130(1):233-40.e5. doi: 10.1016/j.jaci.2012.04.038. Epub 2012 Jun 2.

PMID:
22664159
24.

Search for a gene expression signature of breast cancer local recurrence in young women.

Servant N, Bollet MA, Halfwerk H, Bleakley K, Kreike B, Jacob L, Sie D, Kerkhoven RM, Hupé P, Hadhri R, Fourquet A, Bartelink H, Barillot E, Sigal-Zafrani B, van de Vijver MJ.

Clin Cancer Res. 2012 Mar 15;18(6):1704-15. doi: 10.1158/1078-0432.CCR-11-1954. Epub 2012 Jan 23.

25.

Live-cell chromosome dynamics and outcome of X chromosome pairing events during ES cell differentiation.

Masui O, Bonnet I, Le Baccon P, Brito I, Pollex T, Murphy N, Hupé P, Barillot E, Belmont AS, Heard E.

Cell. 2011 Apr 29;145(3):447-58. doi: 10.1016/j.cell.2011.03.032.

26.

SMETHILLIUM: spatial normalization method for Illumina infinium HumanMethylation BeadChip.

Sabbah C, Mazo G, Paccard C, Reyal F, Hupé P.

Bioinformatics. 2011 Jun 15;27(12):1693-5. doi: 10.1093/bioinformatics/btr187. Epub 2011 Apr 14.

PMID:
21493659
27.

The ERM proteins interact with the HOPS complex to regulate the maturation of endosomes.

Chirivino D, Del Maestro L, Formstecher E, Hupé P, Raposo G, Louvard D, Arpin M.

Mol Biol Cell. 2011 Feb 1;22(3):375-85. doi: 10.1091/mbc.E10-09-0796. Epub 2010 Dec 9.

28.

High PTP4A3 phosphatase expression correlates with metastatic risk in uveal melanoma patients.

Laurent C, Valet F, Planque N, Silveri L, Maacha S, Anezo O, Hupe P, Plancher C, Reyes C, Albaud B, Rapinat A, Gentien D, Couturier J, Sastre-Garau X, Desjardins L, Thiery JP, Roman-Roman S, Asselain B, Barillot E, Piperno-Neumann S, Saule S.

Cancer Res. 2011 Feb 1;71(3):666-74. doi: 10.1158/0008-5472.CAN-10-0605. Epub 2010 Dec 6.

29.

EMA - A R package for Easy Microarray data analysis.

Servant N, Gravier E, Gestraud P, Laurent C, Paccard C, Biton A, Brito I, Mandel J, Asselain B, Barillot E, Hupé P.

BMC Res Notes. 2010 Nov 3;3:277. doi: 10.1186/1756-0500-3-277.

30.

Spi-1/PU.1 oncogene accelerates DNA replication fork elongation and promotes genetic instability in the absence of DNA breakage.

Rimmelé P, Komatsu J, Hupé P, Roulin C, Barillot E, Dutreix M, Conseiller E, Bensimon A, Moreau-Gachelin F, Guillouf C.

Cancer Res. 2010 Sep 1;70(17):6757-66. doi: 10.1158/0008-5472.CAN-09-4691. Epub 2010 Jul 21.

31.

Frequent genomic structural alterations at HPV insertion sites in cervical carcinoma.

Peter M, Stransky N, Couturier J, Hupé P, Barillot E, de Cremoux P, Cottu P, Radvanyi F, Sastre-Garau X.

J Pathol. 2010 Jul;221(3):320-30. doi: 10.1002/path.2713.

PMID:
20527025
32.

miR-181a and miR-630 regulate cisplatin-induced cancer cell death.

Galluzzi L, Morselli E, Vitale I, Kepp O, Senovilla L, Criollo A, Servant N, Paccard C, Hupé P, Robert T, Ripoche H, Lazar V, Harel-Bellan A, Dessen P, Barillot E, Kroemer G.

Cancer Res. 2010 Mar 1;70(5):1793-803. doi: 10.1158/0008-5472.CAN-09-3112. Epub 2010 Feb 9.

33.

Extrachromosomal amplification mechanisms in a glioma with amplified sequences from multiple chromosome loci.

Gibaud A, Vogt N, Hadj-Hamou NS, Meyniel JP, Hupé P, Debatisse M, Malfoy B.

Hum Mol Genet. 2010 Apr 1;19(7):1276-85. doi: 10.1093/hmg/ddq004. Epub 2010 Jan 7.

PMID:
20056677
34.

Multiparametric analysis of cytokine-driven human Th17 differentiation reveals a differential regulation of IL-17 and IL-22 production.

Volpe E, Touzot M, Servant N, Marloie-Provost MA, Hupé P, Barillot E, Soumelis V.

Blood. 2009 Oct 22;114(17):3610-4. doi: 10.1182/blood-2009-05-223768. Epub 2009 Aug 24.

35.

Genomic profiling and identification of high-risk uveal melanoma by array CGH analysis of primary tumors and liver metastases.

Trolet J, Hupé P, Huon I, Lebigot I, Decraene C, Delattre O, Sastre-Garau X, Saule S, Thiéry JP, Plancher C, Asselain B, Desjardins L, Mariani P, Piperno-Neumann S, Barillot E, Couturier J.

Invest Ophthalmol Vis Sci. 2009 Jun;50(6):2572-80. doi: 10.1167/iovs.08-2296. Epub 2009 Jan 17.

PMID:
19151381
36.

Frequent PTEN genomic alterations and activated phosphatidylinositol 3-kinase pathway in basal-like breast cancer cells.

Marty B, Maire V, Gravier E, Rigaill G, Vincent-Salomon A, Kappler M, Lebigot I, Djelti F, Tourdès A, Gestraud P, Hupé P, Barillot E, Cruzalegui F, Tucker GC, Stern MH, Thiery JP, Hickman JA, Dubois T.

Breast Cancer Res. 2008;10(6):R101. doi: 10.1186/bcr2204. Epub 2008 Dec 3.

37.

A critical function for transforming growth factor-beta, interleukin 23 and proinflammatory cytokines in driving and modulating human T(H)-17 responses.

Volpe E, Servant N, Zollinger R, Bogiatzi SI, Hupé P, Barillot E, Soumelis V.

Nat Immunol. 2008 Jun;9(6):650-7. doi: 10.1038/ni.1613. Epub 2008 May 4.

PMID:
18454150
38.

ITALICS: an algorithm for normalization and DNA copy number calling for Affymetrix SNP arrays.

Rigaill G, Hupé P, Almeida A, La Rosa P, Meyniel JP, Decraene C, Barillot E.

Bioinformatics. 2008 Mar 15;24(6):768-74. doi: 10.1093/bioinformatics/btn048. Epub 2008 Feb 5.

PMID:
18252739
39.

High-resolution mapping of DNA breakpoints to define true recurrences among ipsilateral breast cancers.

Bollet MA, Servant N, Neuvial P, Decraene C, Lebigot I, Meyniel JP, De Rycke Y, Savignoni A, Rigaill G, Hupé P, Fourquet A, Sigal-Zafrani B, Barillot E, Thiery JP.

J Natl Cancer Inst. 2008 Jan 2;100(1):48-58. Epub 2007 Dec 25.

PMID:
18159071
40.

ACTuDB, a new database for the integrated analysis of array-CGH and clinical data for tumors.

Hupé P, La Rosa P, Liva S, Lair S, Servant N, Barillot E.

Oncogene. 2007 Oct 11;26(46):6641-52. Epub 2007 May 14.

PMID:
17496932
41.

Challenges in the stratification of breast tumors for tailored therapies.

Thiery JP, Sastre-Garau X, Vincent-Salomon B, Sigal-Zafrani X, Pierga JY, Decraene C, Meyniel JP, Gravier E, Asselain B, De Rycke Y, Hupe P, Barillot E, Ajaz S, Faraldo M, Deugnier MA, Glukhova M, Medina D; Breast Cancer Group.

Bull Cancer. 2006 Aug;93(8):E81-9. Review.

42.

CAPweb: a bioinformatics CGH array Analysis Platform.

Liva S, Hupé P, Neuvial P, Brito I, Viara E, La Rosa P, Barillot E.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W477-81.

43.

VAMP: visualization and analysis of array-CGH, transcriptome and other molecular profiles.

La Rosa P, Viara E, Hupé P, Pierron G, Liva S, Neuvial P, Brito I, Lair S, Servant N, Robine N, Manié E, Brennetot C, Janoueix-Lerosey I, Raynal V, Gruel N, Rouveirol C, Stransky N, Stern MH, Delattre O, Aurias A, Radvanyi F, Barillot E.

Bioinformatics. 2006 Sep 1;22(17):2066-73. Epub 2006 Jul 4.

PMID:
16820431
44.

Spatial normalization of array-CGH data.

Neuvial P, Hupé P, Brito I, Liva S, Manié E, Brennetot C, Radvanyi F, Aurias A, Barillot E.

BMC Bioinformatics. 2006 May 22;7:264.

45.

Computation of recurrent minimal genomic alterations from array-CGH data.

Rouveirol C, Stransky N, Hupé P, Rosa PL, Viara E, Barillot E, Radvanyi F.

Bioinformatics. 2006 Apr 1;22(7):849-56. Epub 2006 Jan 24.

PMID:
16434445
46.

Preferential occurrence of chromosome breakpoints within early replicating regions in neuroblastoma.

Janoueix-Lerosey I, Hupé P, Maciorowski Z, La Rosa P, Schleiermacher G, Pierron G, Liva S, Barillot E, Delattre O.

Cell Cycle. 2005 Dec;4(12):1842-6. Epub 2005 Dec 14.

PMID:
16294040
47.

Analysis of array CGH data: from signal ratio to gain and loss of DNA regions.

Hupé P, Stransky N, Thiery JP, Radvanyi F, Barillot E.

Bioinformatics. 2004 Dec 12;20(18):3413-22. Epub 2004 Sep 20.

PMID:
15381628

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