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Items: 49

1.

Steroidogenic differentiation and PKA signaling are programmed by histone methyltransferase EZH2 in the adrenal cortex.

Mathieu M, Drelon C, Rodriguez S, Tabbal H, Septier A, Damon-Soubeyrand C, Dumontet T, Berthon A, Sahut-Barnola I, Djari C, Batisse-Lignier M, Pointud JC, Richard D, Kerdivel G, Calméjane MA, Boeva V, Tauveron I, Lefrançois-Martinez AM, Martinez A, Val P.

Proc Natl Acad Sci U S A. 2018 Dec 26;115(52):E12265-E12274. doi: 10.1073/pnas.1809185115. Epub 2018 Dec 12.

PMID:
30541888
2.

Huntingtin-Associated Protein 1A Regulates Store-Operated Calcium Entry in Medium Spiny Neurons From Transgenic YAC128 Mice, a Model of Huntington's Disease.

Czeredys M, Vigont VA, Boeva VA, Mikoshiba K, Kaznacheyeva EV, Kuznicki J.

Front Cell Neurosci. 2018 Oct 26;12:381. doi: 10.3389/fncel.2018.00381. eCollection 2018.

3.

TBX2 is a neuroblastoma core regulatory circuitry component enhancing MYCN/FOXM1 reactivation of DREAM targets.

Decaesteker B, Denecker G, Van Neste C, Dolman EM, Van Loocke W, Gartlgruber M, Nunes C, De Vloed F, Depuydt P, Verboom K, Rombaut D, Loontiens S, De Wyn J, Kholosy WM, Koopmans B, Essing AHW, Herrmann C, Dreidax D, Durinck K, Deforce D, van Nieuwerburgh F, Henssen A, Versteeg R, Boeva V, Schleiermacher G, van Nes J, Mestdagh P, Vanhauwaert S, Schulte JH, Westermann F, Molenaar JJ, De Preter K, Speleman F.

Nat Commun. 2018 Nov 19;9(1):4866. doi: 10.1038/s41467-018-06699-9.

4.

[The influence of the vitamin D3 level in the blood serum of lactase gene polymorphism on the development of chronic polypous rhinosinusitis].

Boeva VI, Kokorina OV, Archba RR, Dvoryanchikov VV, Kolhyubaeva SN.

Vestn Otorinolaringol. 2018;83(5):49-54. doi: 10.17116/otorino20188305149. Russian.

PMID:
30412176
5.

Meta-mining of copy number profiles of high-risk neuroblastoma tumors.

Depuydt P, Koster J, Boeva V, Hocking TD, Speleman F, Schleiermacher G, De Preter K.

Sci Data. 2018 Oct 30;5:180240. doi: 10.1038/sdata.2018.240.

6.

FUN-LDA: A Latent Dirichlet Allocation Model for Predicting Tissue-Specific Functional Effects of Noncoding Variation: Methods and Applications.

Backenroth D, He Z, Kiryluk K, Boeva V, Pethukova L, Khurana E, Christiano A, Buxbaum JD, Ionita-Laza I.

Am J Hum Genet. 2018 May 3;102(5):920-942. doi: 10.1016/j.ajhg.2018.03.026.

7.

Genomic Amplifications and Distal 6q Loss: Novel Markers for Poor Survival in High-risk Neuroblastoma Patients.

Depuydt P, Boeva V, Hocking TD, Cannoodt R, Ambros IM, Ambros PF, Asgharzadeh S, Attiyeh EF, Combaret V, Defferrari R, Fischer M, Hero B, Hogarty MD, Irwin MS, Koster J, Kreissman S, Ladenstein R, Lapouble E, Laureys G, London WB, Mazzocco K, Nakagawara A, Noguera R, Ohira M, Park JR, Pötschger U, Theissen J, Tonini GP, Valteau-Couanet D, Varesio L, Versteeg R, Speleman F, Maris JM, Schleiermacher G, De Preter K.

J Natl Cancer Inst. 2018 Oct 1;110(10):1084-1093. doi: 10.1093/jnci/djy022.

8.

QuantumClone: clonal assessment of functional mutations in cancer based on a genotype-aware method for clonal reconstruction.

Deveau P, Colmet Daage L, Oldridge D, Bernard V, Bellini A, Chicard M, Clement N, Lapouble E, Combaret V, Boland A, Meyer V, Deleuze JF, Janoueix-Lerosey I, Barillot E, Delattre O, Maris JM, Schleiermacher G, Boeva V.

Bioinformatics. 2018 Jun 1;34(11):1808-1816. doi: 10.1093/bioinformatics/bty016.

9.

Activated ALK signals through the ERK-ETV5-RET pathway to drive neuroblastoma oncogenesis.

Lopez-Delisle L, Pierre-Eugène C, Louis-Brennetot C, Surdez D, Raynal V, Baulande S, Boeva V, Grossetête-Lalami S, Combaret V, Peuchmaur M, Delattre O, Janoueix-Lerosey I.

Oncogene. 2018 Mar;37(11):1417-1429. doi: 10.1038/s41388-017-0039-5. Epub 2018 Jan 11.

10.

Lenalidomide-mediated erythroid improvement in non-del(5q) myelodysplastic syndromes is associated with bone marrow immuno-remodeling.

Kerdivel G, Chesnais V, Becht E, Toma A, Cagnard N, Dumont F, Rousseau A, Fenaux P, Chevret S, Chapuis N, Boeva V, Fridman WH, Fontenay M, Kosmider O.

Leukemia. 2018 Feb;32(2):558-562. doi: 10.1038/leu.2017.305. Epub 2017 Oct 3. No abstract available.

PMID:
28972593
11.

Calling Chromosome Alterations, DNA Methylation Statuses, and Mutations in Tumors by Simple Targeted Next-Generation Sequencing: A Solution for Transferring Integrated Pangenomic Studies into Routine Practice?

Garinet S, Néou M, de La Villéon B, Faillot S, Sakat J, Da Fonseca JP, Jouinot A, Le Tourneau C, Kamal M, Luscap-Rondof W, Boeva V, Gaujoux S, Vidaud M, Pasmant E, Letourneur F, Bertherat J, Assié G.

J Mol Diagn. 2017 Sep;19(5):776-787. doi: 10.1016/j.jmoldx.2017.06.005.

PMID:
28826610
12.

Heterogeneity of neuroblastoma cell identity defined by transcriptional circuitries.

Boeva V, Louis-Brennetot C, Peltier A, Durand S, Pierre-Eugène C, Raynal V, Etchevers HC, Thomas S, Lermine A, Daudigeos-Dubus E, Geoerger B, Orth MF, Grünewald TGP, Diaz E, Ducos B, Surdez D, Carcaboso AM, Medvedeva I, Deller T, Combaret V, Lapouble E, Pierron G, Grossetête-Lalami S, Baulande S, Schleiermacher G, Barillot E, Rohrer H, Delattre O, Janoueix-Lerosey I.

Nat Genet. 2017 Sep;49(9):1408-1413. doi: 10.1038/ng.3921. Epub 2017 Jul 24.

PMID:
28740262
13.

HMCan-diff: a method to detect changes in histone modifications in cells with different genetic characteristics.

Ashoor H, Louis-Brennetot C, Janoueix-Lerosey I, Bajic VB, Boeva V.

Nucleic Acids Res. 2017 May 5;45(8):e58. doi: 10.1093/nar/gkw1319.

14.

Comparative analyses of super-enhancers reveal conserved elements in vertebrate genomes.

Pérez-Rico YA, Boeva V, Mallory AC, Bitetti A, Majello S, Barillot E, Shkumatava A.

Genome Res. 2017 Feb;27(2):259-268. doi: 10.1101/gr.203679.115. Epub 2016 Dec 13.

15.

Erratum: Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis.

Sieberts SK, Zhu F, García-García J, Stahl E, Pratap A, Pandey G, Pappas D, Aguilar D, Anton B, Bonet J, Eksi R, Fornés O, Guney E, Li H, Marín MA, Panwar B, Planas-Iglesias J, Poglayen D, Cui J, Falcao AO, Suver C, Hoff B, Balagurusamy VS, Dillenberger D, Neto EC, Norman T, Aittokallio T, Ammad-Ud-Din M, Azencott CA, Bellón V, Boeva V, Bunte K, Chheda H, Cheng L, Corander J, Dumontier M, Goldenberg A, Gopalacharyulu P, Hajiloo M, Hidru D, Jaiswal A, Kaski S, Khalfaoui B, Khan SA, Kramer ER, Marttinen P, Mezlini AM, Molparia B, Pirinen M, Saarela J, Samwald M, Stoven V, Tang H, Tang J, Torkamani A, Vert JP, Wang B, Wang T, Wennerberg K, Wineinger NE, Xiao G, Xie Y, Yeung R, Zhan X, Zhao C; Members of the Rheumatoid Arthritis Challenge Consortium, Greenberg J, Kremer J, Michaud K, Barton A, Coenen M, Mariette X, Miceli C, Shadick N, Weinblatt M, de Vries N, Tak PP, Gerlag D, Huizinga TW, Kurreeman F, Allaart CF, Bridges SL Jr, Criswell L, Moreland L, Klareskog L, Saevarsdottir S, Padyukov L, Gregersen PK, Friend S, Plenge R, Stolovitzky G, Oliva B, Guan Y, Mangravite LM.

Nat Commun. 2016 Oct 10;7:13205. doi: 10.1038/ncomms13205. No abstract available.

16.

Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis.

Sieberts SK, Zhu F, García-García J, Stahl E, Pratap A, Pandey G, Pappas D, Aguilar D, Anton B, Bonet J, Eksi R, Fornés O, Guney E, Li H, Marín MA, Panwar B, Planas-Iglesias J, Poglayen D, Cui J, Falcao AO, Suver C, Hoff B, Balagurusamy VS, Dillenberger D, Neto EC, Norman T, Aittokallio T, Ammad-Ud-Din M, Azencott CA, Bellón V, Boeva V, Bunte K, Chheda H, Cheng L, Corander J, Dumontier M, Goldenberg A, Gopalacharyulu P, Hajiloo M, Hidru D, Jaiswal A, Kaski S, Khalfaoui B, Khan SA, Kramer ER, Marttinen P, Mezlini AM, Molparia B, Pirinen M, Saarela J, Samwald M, Stoven V, Tang H, Tang J, Torkamani A, Vert JP, Wang B, Wang T, Wennerberg K, Wineinger NE, Xiao G, Xie Y, Yeung R, Zhan X, Zhao C; Members of the Rheumatoid Arthritis Challenge Consortium, Greenberg J, Kremer J, Michaud K, Barton A, Coenen M, Mariette X, Miceli C, Shadick N, Weinblatt M, de Vries N, Tak PP, Gerlag D, Huizinga TW, Kurreeman F, Allaart CF, Louis Bridges S Jr, Bridges SL, Criswell L, Moreland L, Klareskog L, Saevarsdottir S, Padyukov L, Gregersen PK, Friend S, Plenge R, Stolovitzky G, Oliva B, Guan Y, Mangravite LM.

Nat Commun. 2016 Aug 23;7:12460. doi: 10.1038/ncomms12460. Erratum in: Nat Commun. 2016 Oct 10;7:13205.

17.

Analysis of Genomic Sequence Motifs for Deciphering Transcription Factor Binding and Transcriptional Regulation in Eukaryotic Cells.

Boeva V.

Front Genet. 2016 Feb 23;7:24. doi: 10.3389/fgene.2016.00024. eCollection 2016. Review.

18.

Ovarian Cancers Harboring Inactivating Mutations in CDK12 Display a Distinct Genomic Instability Pattern Characterized by Large Tandem Duplications.

Popova T, Manié E, Boeva V, Battistella A, Goundiam O, Smith NK, Mueller CR, Raynal V, Mariani O, Sastre-Garau X, Stern MH.

Cancer Res. 2016 Apr 1;76(7):1882-91. doi: 10.1158/0008-5472.CAN-15-2128. Epub 2016 Jan 19.

19.

SV-Bay: structural variant detection in cancer genomes using a Bayesian approach with correction for GC-content and read mappability.

Iakovishina D, Janoueix-Lerosey I, Barillot E, Regnier M, Boeva V.

Bioinformatics. 2016 Apr 1;32(7):984-92. doi: 10.1093/bioinformatics/btv751. Epub 2016 Jan 6.

20.

Changes in correlation between promoter methylation and gene expression in cancer.

Moarii M, Boeva V, Vert JP, Reyal F.

BMC Genomics. 2015 Oct 28;16:873. doi: 10.1186/s12864-015-1994-2.

21.

RNF: a general framework to evaluate NGS read mappers.

Břinda K, Boeva V, Kucherov G.

Bioinformatics. 2016 Jan 1;32(1):136-9. doi: 10.1093/bioinformatics/btv524. Epub 2015 Sep 9.

22.

Chimeric EWSR1-FLI1 regulates the Ewing sarcoma susceptibility gene EGR2 via a GGAA microsatellite.

Grünewald TG, Bernard V, Gilardi-Hebenstreit P, Raynal V, Surdez D, Aynaud MM, Mirabeau O, Cidre-Aranaz F, Tirode F, Zaidi S, Perot G, Jonker AH, Lucchesi C, Le Deley MC, Oberlin O, Marec-Bérard P, Véron AS, Reynaud S, Lapouble E, Boeva V, Rio Frio T, Alonso J, Bhatia S, Pierron G, Cancel-Tassin G, Cussenot O, Cox DG, Morton LM, Machiela MJ, Chanock SJ, Charnay P, Delattre O.

Nat Genet. 2015 Sep;47(9):1073-8. doi: 10.1038/ng.3363. Epub 2015 Jul 27.

23.

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.

24.

A formal concept analysis approach to consensus clustering of multi-experiment expression data.

Hristoskova A, Boeva V, Tsiporkova E.

BMC Bioinformatics. 2014 May 19;15:151. doi: 10.1186/1471-2105-15-151.

25.

SegAnnDB: interactive Web-based genomic segmentation.

Hocking TD, Boeva V, Rigaill G, Schleiermacher G, Janoueix-Lerosey I, Delattre O, Richer W, Bourdeaut F, Suguro M, Seto M, Bach F, Vert JP.

Bioinformatics. 2014 Jun 1;30(11):1539-46. doi: 10.1093/bioinformatics/btu072. Epub 2014 Feb 3.

26.

Jarid2 Is Implicated in the Initial Xist-Induced Targeting of PRC2 to the Inactive X Chromosome.

da Rocha ST, Boeva V, Escamilla-Del-Arenal M, Ancelin K, Granier C, Matias NR, Sanulli S, Chow J, Schulz E, Picard C, Kaneko S, Helin K, Reinberg D, Stewart AF, Wutz A, Margueron R, Heard E.

Mol Cell. 2014 Jan 23;53(2):301-16. doi: 10.1016/j.molcel.2014.01.002.

27.

HMCan: a method for detecting chromatin modifications in cancer samples using ChIP-seq data.

Ashoor H, Hérault A, Kamoun A, Radvanyi F, Bajic VB, Barillot E, Boeva V.

Bioinformatics. 2013 Dec 1;29(23):2979-86. doi: 10.1093/bioinformatics/btt524. Epub 2013 Sep 9.

28.

Breakpoint features of genomic rearrangements in neuroblastoma with unbalanced translocations and chromothripsis.

Boeva V, Jouannet S, Daveau R, Combaret V, Pierre-Eugène C, Cazes A, Louis-Brennetot C, Schleiermacher G, Ferrand S, Pierron G, Lermine A, Rio Frio T, Raynal V, Vassal G, Barillot E, Delattre O, Janoueix-Lerosey I.

PLoS One. 2013 Aug 26;8(8):e72182. doi: 10.1371/journal.pone.0072182. eCollection 2013.

29.

Learning smoothing models of copy number profiles using breakpoint annotations.

Hocking TD, Schleiermacher G, Janoueix-Lerosey I, Boeva V, Cappo J, Delattre O, Bach F, Vert JP.

BMC Bioinformatics. 2013 May 22;14:164. doi: 10.1186/1471-2105-14-164.

30.

Characterization of rearrangements involving the ALK gene reveals a novel truncated form associated with tumor aggressiveness in neuroblastoma.

Cazes A, Louis-Brennetot C, Mazot P, Dingli F, Lombard B, Boeva V, Daveau R, Cappo J, Combaret V, Schleiermacher G, Jouannet S, Ferrand S, Pierron G, Barillot E, Loew D, Vigny M, Delattre O, Janoueix-Lerosey I.

Cancer Res. 2013 Jan 1;73(1):195-204. doi: 10.1158/0008-5472.CAN-12-1242. Epub 2012 Nov 8.

31.

Nebula--a web-server for advanced ChIP-seq data analysis.

Boeva V, Lermine A, Barette C, Guillouf C, Barillot E.

Bioinformatics. 2012 Oct 1;28(19):2517-9. Epub 2012 Jul 24.

PMID:
22829625
32.

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.

33.

Control-FREEC: a tool for assessing copy number and allelic content using next-generation sequencing data.

Boeva V, Popova T, Bleakley K, Chiche P, Cappo J, Schleiermacher G, Janoueix-Lerosey I, Delattre O, Barillot E.

Bioinformatics. 2012 Feb 1;28(3):423-5. doi: 10.1093/bioinformatics/btr670. Epub 2011 Dec 6.

34.

Control-free calling of copy number alterations in deep-sequencing data using GC-content normalization.

Boeva V, Zinovyev A, Bleakley K, Vert JP, Janoueix-Lerosey I, Delattre O, Barillot E.

Bioinformatics. 2011 Jan 15;27(2):268-9. doi: 10.1093/bioinformatics/btq635. Epub 2010 Nov 15.

35.

Deep and wide digging for binding motifs in ChIP-Seq data.

Kulakovskiy IV, Boeva VA, Favorov AV, Makeev VJ.

Bioinformatics. 2010 Oct 15;26(20):2622-3. doi: 10.1093/bioinformatics/btq488. Epub 2010 Aug 24.

PMID:
20736340
36.

SVDetect: a tool to identify genomic structural variations from paired-end and mate-pair sequencing data.

Zeitouni B, Boeva V, Janoueix-Lerosey I, Loeillet S, Legoix-né P, Nicolas A, Delattre O, Barillot E.

Bioinformatics. 2010 Aug 1;26(15):1895-6. doi: 10.1093/bioinformatics/btq293.

37.

De novo motif identification improves the accuracy of predicting transcription factor binding sites in ChIP-Seq data analysis.

Boeva V, Surdez D, Guillon N, Tirode F, Fejes AP, Delattre O, Barillot E.

Nucleic Acids Res. 2010 Jun;38(11):e126. doi: 10.1093/nar/gkq217. Epub 2010 Apr 7.

38.

The oncogenic EWS-FLI1 protein binds in vivo GGAA microsatellite sequences with potential transcriptional activation function.

Guillon N, Tirode F, Boeva V, Zynovyev A, Barillot E, Delattre O.

PLoS One. 2009;4(3):e4932. doi: 10.1371/journal.pone.0004932. Epub 2009 Mar 23.

39.

Fusing time series expression data through hybrid aggregation and hierarchical merge.

Tsiporkova E, Boeva V.

Bioinformatics. 2008 Aug 15;24(16):i63-9. doi: 10.1093/bioinformatics/btn264.

PMID:
18689841
40.

Two-pass imputation algorithm for missing value estimation in gene expression time series.

Tsiporkova E, Boeva V.

J Bioinform Comput Biol. 2007 Oct;5(5):1005-22.

PMID:
17933008
41.
42.

[Relationship between micro- and minisatellites in the human genome].

Boeva VA, Fridman MV, Makeev VIu.

Biofizika. 2006 Jul-Aug;51(4):650-5. Russian.

PMID:
16909842
43.

Short fuzzy tandem repeats in genomic sequences, identification, and possible role in regulation of gene expression.

Boeva V, Regnier M, Papatsenko D, Makeev V.

Bioinformatics. 2006 Mar 15;22(6):676-84. Epub 2006 Jan 10.

PMID:
16403795
44.

Double aldehyde stabilisation of erythrocytes in the indirect hemagglutination for echinococcosis.

Todorov T, Vutova K, Vachkov P, Boeva V, Mechkov G, Handjiev S, Donev S.

Parasitol Int. 2003 Sep;52(3):203-7.

PMID:
14550475
45.

Echinococcosis in children and adolescents in Bulgaria: a comparative study.

Todorov T, Boeva V.

Ann Trop Med Parasitol. 2000 Mar;94(2):135-44.

PMID:
10827868
46.

Human echinococcosis in Bulgaria: a comparative epidemiological analysis.

Todorov T, Boeva V.

Bull World Health Organ. 1999;77(2):110-8.

47.

[The achievements and outlook in the control of helminthiases in Bulgaria].

Genov GM, Boeva VG.

Med Parazitol (Mosk). 1990 May-Jun;(3):23-6. Russian.

PMID:
2215367
48.

[Parasitologic studies in various diseases of the skin].

Tonkin N, Genov G, Dimitrov Khr, Petrov P, Boeva V.

Vestn Dermatol Venerol. 1986;(5):39-40. Russian. No abstract available.

PMID:
3727795
49.

[Epidemiology of echinococcosis in domestic animals and man in Bulgaria].

Soilev C, Boeva V.

Angew Parasitol. 1982 Aug;23(3):129-34. German.

PMID:
7149329

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