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Transcriptome profiling of mouse samples using nanopore sequencing of cDNA and RNA molecules.

Sessegolo C, Cruaud C, Da Silva C, Cologne A, Dubarry M, Derrien T, Lacroix V, Aury JM.

Sci Rep. 2019 Oct 17;9(1):14908. doi: 10.1038/s41598-019-51470-9.


New insights into minor splicing-a transcriptomic analysis of cells derived from TALS patients.

Cologne A, Benoit-Pilven C, Besson A, Putoux A, Campan-Fournier A, Bober MB, De Die-Smulders CEM, Paulussen ADC, Pinson L, Toutain A, Roifman CM, Leutenegger AL, Mazoyer S, Edery P, Lacroix V.

RNA. 2019 Sep;25(9):1130-1149. doi: 10.1261/rna.071423.119. Epub 2019 Jun 7.


Advances in Analyzing Virus-Induced Alterations of Host Cell Splicing.

Ashraf U, Benoit-Pilven C, Lacroix V, Navratil V, Naffakh N.

Trends Microbiol. 2019 Mar;27(3):268-281. doi: 10.1016/j.tim.2018.11.004. Epub 2018 Dec 19. Review.


Balloon Angioplasty Versus Bailout Stenting for Isolated Chronic Total Occlusions in the Popliteal Artery.

Elens M, Verhelst R, Mastrobuoni S, Bosiers MJ, Possoz J, Lacroix V, Astarci P.

Vasc Endovascular Surg. 2019 Feb;53(2):126-131. doi: 10.1177/1538574418814060. Epub 2018 Nov 22.


A fast and agnostic method for bacterial genome-wide association studies: Bridging the gap between k-mers and genetic events.

Jaillard M, Lima L, Tournoud M, Mahé P, van Belkum A, Lacroix V, Jacob L.

PLoS Genet. 2018 Nov 12;14(11):e1007758. doi: 10.1371/journal.pgen.1007758. eCollection 2018 Nov.


An unusual case of cardiac tamponade: Bronchogenic cyst infection due to Salmonella bredeney.

Yildiz H, Reichwein R, Poncelet A, Lacroix V, D'abadie P, Ghaye B, Hoton D, Yombi JC.

J Infect Chemother. 2019 Feb;25(2):151-153. doi: 10.1016/j.jiac.2018.07.012. Epub 2018 Aug 8.


Lung Middle Lobe Laceration Needing Lobectomy as Complication of Nuss Bar Removal.

Henry B, Lacroix V, Pirotte T, Docquier PL.

Case Rep Orthop. 2018 Feb 22;2018:8965641. doi: 10.1155/2018/8965641. eCollection 2018.


Complementarity of assembly-first and mapping-first approaches for alternative splicing annotation and differential analysis from RNAseq data.

Benoit-Pilven C, Marchet C, Chautard E, Lima L, Lambert MP, Sacomoto G, Rey A, Cologne A, Terrone S, Dulaurier L, Claude JB, Bourgeois CF, Auboeuf D, Lacroix V.

Sci Rep. 2018 Mar 9;8(1):4307. doi: 10.1038/s41598-018-21770-7.


Open Lung Biopsy in Nonresolving Acute Respiratory Distress Syndrome Commonly Identifies Corticosteroid-Sensitive Pathologies, Associated With Better Outcome.

Gerard L, Bidoul T, Castanares-Zapatero D, Wittebole X, Lacroix V, Froidure A, Hoton D, Laterre PF.

Crit Care Med. 2018 Jun;46(6):907-914. doi: 10.1097/CCM.0000000000003081.


Effect of continuous positive airway pressure administration during lung stereotactic ablative radiotherapy: a comparative planning study.

Di Perri D, Colot A, Delor A, Ghoul R, Janssens G, Lacroix V, Matte P, Robert A, Souris K, Geets X.

Strahlenther Onkol. 2018 Jun;194(6):591-599. doi: 10.1007/s00066-018-1278-2. Epub 2018 Feb 15.


Management and Outcome of Prosthetic Vascular Graft Infections: A Single Center Experience.

Elens M, Dusoruth M, Astarci P, Mastrobuoni S, Bosiers MJ, Nardella J, Lacroix V, Possoz J, Verhelst R.

Vasc Endovascular Surg. 2018 Apr;52(3):181-187. doi: 10.1177/1538574418754453. Epub 2018 Feb 8.


Short-Term Results of Eluvia™ Paclitaxel-Eluting Stent in External Iliac and Femoropopliteal Lesions.

Elens M, Verhelst R, Possoz J, Mastrobuoni S, Lacroix V, Astarci P.

Surg Technol Int. 2017 Nov 9;31:162-167.


Playing hide and seek with repeats in local and global de novo transcriptome assembly of short RNA-seq reads.

Lima L, Sinaimeri B, Sacomoto G, Lopez-Maestre H, Marchet C, Miele V, Sagot MF, Lacroix V.

Algorithms Mol Biol. 2017 Feb 22;12:2. doi: 10.1186/s13015-017-0091-2. eCollection 2017.


Identification of misexpressed genetic elements in hybrids between Drosophila-related species.

Lopez-Maestre H, Carnelossi EA, Lacroix V, Burlet N, Mugat B, Chambeyron S, Carareto CM, Vieira C.

Sci Rep. 2017 Jan 16;7:40618. doi: 10.1038/srep40618.


SNP calling from RNA-seq data without a reference genome: identification, quantification, differential analysis and impact on the protein sequence.

Lopez-Maestre H, Brinza L, Marchet C, Kielbassa J, Bastien S, Boutigny M, Monnin D, Filali AE, Carareto CM, Vieira C, Picard F, Kremer N, Vavre F, Sagot MF, Lacroix V.

Nucleic Acids Res. 2016 Nov 2;44(19):e148. Epub 2016 Jul 25.


Erratum: Pain, Quality of Life, and Clinical Outcomes after Robotic Lobectomy.

Lacroix V, Mosala Nezhad Z, Kahn D, Steyaert A, Poncelet A, Pieters T, Noirhomme P.

Thorac Cardiovasc Surg. 2017 Aug;65(5):e1. doi: 10.1055/s-0036-1593345. Epub 2016 Sep 13. No abstract available.


Pain, Quality of Life, and Clinical Outcomes after Robotic Lobectomy.

Lacroix V, Mosala Nezhad Z, Kahn D, Steyaert A, Poncelet A, Pieters T, Noirhomme P.

Thorac Cardiovasc Surg. 2017 Aug;65(5):344-350. doi: 10.1055/s-0036-1587590. Epub 2016 Aug 30. Erratum in: Thorac Cardiovasc Surg. 2017 Aug;65(5):e1.


Alpha-1 antitrypsin deficiency: a novel cause of isolated systolic resistant hypertension?

Van Leeuw JB, Berra E, Gu Y, Petit T, Lacroix V, Lanthier N, Van Hoof M, Staessen JA, Persu A.

J Hypertens. 2016 Aug;34(8):1659-61. doi: 10.1097/HJH.0000000000000997. No abstract available.


Splicing misregulation of SCN5A contributes to cardiac-conduction delay and heart arrhythmia in myotonic dystrophy.

Freyermuth F, Rau F, Kokunai Y, Linke T, Sellier C, Nakamori M, Kino Y, Arandel L, Jollet A, Thibault C, Philipps M, Vicaire S, Jost B, Udd B, Day JW, Duboc D, Wahbi K, Matsumura T, Fujimura H, Mochizuki H, Deryckere F, Kimura T, Nukina N, Ishiura S, Lacroix V, Campan-Fournier A, Navratil V, Chautard E, Auboeuf D, Horie M, Imoto K, Lee KY, Swanson MS, de Munain AL, Inada S, Itoh H, Nakazawa K, Ashihara T, Wang E, Zimmer T, Furling D, Takahashi MP, Charlet-Berguerand N.

Nat Commun. 2016 Apr 11;7:11067. doi: 10.1038/ncomms11067.


Colib'read on galaxy: a tools suite dedicated to biological information extraction from raw NGS reads.

Le Bras Y, Collin O, Monjeaud C, Lacroix V, Rivals É, Lemaitre C, Miele V, Sacomoto G, Marchet C, Cazaux B, Zine El Aabidine A, Salmela L, Alves-Carvalho S, Andrieux A, Uricaru R, Peterlongo P.

Gigascience. 2016 Feb 11;5:9. doi: 10.1186/s13742-015-0105-2. eCollection 2016.


A polynomial delay algorithm for the enumeration of bubbles with length constraints in directed graphs.

Sacomoto G, Lacroix V, Sagot MF.

Algorithms Mol Biol. 2015 Jun 27;10:20. doi: 10.1186/s13015-015-0046-4. eCollection 2015.


The place of extensive surgery in locoregional recurrence and limited metastatic disease of breast cancer: preliminary results.

Berlière M, Duhoux FP, Taburiaux L, Lacroix V, Galant C, Leconte I, Fellah L, Lecouvet F, Bouziane D, Piette P, Lengele B.

Biomed Res Int. 2015;2015:782654. doi: 10.1155/2015/782654. Epub 2015 Mar 18.


Reference-free detection of isolated SNPs.

Uricaru R, Rizk G, Lacroix V, Quillery E, Plantard O, Chikhi R, Lemaitre C, Peterlongo P.

Nucleic Acids Res. 2015 Jan;43(2):e11. doi: 10.1093/nar/gku1187. Epub 2014 Nov 17.


Telling metabolic stories to explore metabolomics data: a case study on the yeast response to cadmium exposure.

Milreu PV, Klein CC, Cottret L, Acuña V, Birmelé E, Borassi M, Junot C, Marchetti-Spaccamela A, Marino A, Stougie L, Jourdan F, Crescenzi P, Lacroix V, Sagot MF.

Bioinformatics. 2014 Jan 1;30(1):61-70. doi: 10.1093/bioinformatics/btt597. Epub 2013 Oct 27.


Mediastinal teratoma with coexisting parenchymal pulmonary cystic lesion.

Maillart JF, Lacroix V, Camboni A, Poncelet AJ.

Ann Thorac Surg. 2013 Sep;96(3):1081-3. doi: 10.1016/j.athoracsur.2013.01.032.


Validation of a 1D patient-specific model of the arterial hemodynamics in bypassed lower-limbs: simulations against in vivo measurements.

Willemet M, Lacroix V, Marchandise E.

Med Eng Phys. 2013 Nov;35(11):1573-83. doi: 10.1016/j.medengphy.2013.04.012. Epub 2013 May 21.


Short and long-term genome stability analysis of prokaryotic genomes.

Brilli M, Liò P, Lacroix V, Sagot MF.

BMC Genomics. 2013 May 8;14:309. doi: 10.1186/1471-2164-14-309.


ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data.

Frenkel-Morgenstern M, Gorohovski A, Lacroix V, Rogers M, Ibanez K, Boullosa C, Andres Leon E, Ben-Hur A, Valencia A.

Nucleic Acids Res. 2013 Jan;41(Database issue):D142-51. doi: 10.1093/nar/gks1041. Epub 2012 Nov 9.


Modelling and simulating generic RNA-Seq experiments with the flux simulator.

Griebel T, Zacher B, Ribeca P, Raineri E, Lacroix V, Guigó R, Sammeth M.

Nucleic Acids Res. 2012 Nov 1;40(20):10073-83. doi: 10.1093/nar/gks666. Epub 2012 Sep 7.


Exploration of the core metabolism of symbiotic bacteria.

Klein CC, Cottret L, Kielbassa J, Charles H, Gautier C, Ribeiro de Vasconcelos AT, Lacroix V, Sagot MF.

BMC Genomics. 2012 Aug 31;13:438. doi: 10.1186/1471-2164-13-438.


Chimeras taking shape: potential functions of proteins encoded by chimeric RNA transcripts.

Frenkel-Morgenstern M, Lacroix V, Ezkurdia I, Levin Y, Gabashvili A, Prilusky J, Del Pozo A, Tress M, Johnson R, Guigo R, Valencia A.

Genome Res. 2012 Jul;22(7):1231-42. doi: 10.1101/gr.130062.111. Epub 2012 May 15.


KISSPLICE: de-novo calling alternative splicing events from RNA-seq data.

Sacomoto GA, Kielbassa J, Chikhi R, Uricaru R, Antoniou P, Sagot MF, Peterlongo P, Lacroix V.

BMC Bioinformatics. 2012 Apr 19;13 Suppl 6:S5. doi: 10.1186/1471-2105-13-S6-S5.


Evidence for transcript networks composed of chimeric RNAs in human cells.

Djebali S, Lagarde J, Kapranov P, Lacroix V, Borel C, Mudge JM, Howald C, Foissac S, Ucla C, Chrast J, Ribeca P, Martin D, Murray RR, Yang X, Ghamsari L, Lin C, Bell I, Dumais E, Drenkow J, Tress ML, Gelpí JL, Orozco M, Valencia A, van Berkum NL, Lajoie BR, Vidal M, Stamatoyannopoulos J, Batut P, Dobin A, Harrow J, Hubbard T, Dekker J, Frankish A, Salehi-Ashtiani K, Reymond A, Antonarakis SE, Guigó R, Gingeras TR.

PLoS One. 2012;7(1):e28213. doi: 10.1371/journal.pone.0028213. Epub 2012 Jan 4.


Close 3D proximity of evolutionary breakpoints argues for the notion of spatial synteny.

Véron AS, Lemaitre C, Gautier C, Lacroix V, Sagot MF.

BMC Genomics. 2011 Jun 10;12:303. doi: 10.1186/1471-2164-12-303.


Inlet boundary conditions for blood flow simulations in truncated arterial networks.

Willemet M, Lacroix V, Marchandise E.

J Biomech. 2011 Mar 15;44(5):897-903. doi: 10.1016/j.jbiomech.2010.11.036. Epub 2010 Dec 31.


Gradient-based delineation of the primary GTV on FDG-PET in non-small cell lung cancer: a comparison with threshold-based approaches, CT and surgical specimens.

Wanet M, Lee JA, Weynand B, De Bast M, Poncelet A, Lacroix V, Coche E, Grégoire V, Geets X.

Radiother Oncol. 2011 Jan;98(1):117-25. doi: 10.1016/j.radonc.2010.10.006. Epub 2010 Nov 11.


Unsuccessful treatment of a collapsed thoracic stent graft by Palmaz stent.

Pirotte M, Lacroix V, Astarci P, Nardella J, Funken JC, El Khoury G, Noirhomme P, Verhelst R.

Ann Vasc Surg. 2010 Nov;24(8):1137.e13-9. doi: 10.1016/j.avsg.2010.06.012.


Effects of preoperative aortic insufficiency on outcome after aortic valve-sparing surgery.

de Kerchove L, Boodhwani M, Glineur D, Poncelet A, Verhelst R, Astarci P, Lacroix V, Rubay J, Vandyck M, Vanoverschelde JL, Noirhomme P, El Khoury G.

Circulation. 2009 Sep 15;120(11 Suppl):S120-6. doi: 10.1161/CIRCULATIONAHA.108.841445.


Endovascular treatment of acute aortic isthmic rupture: concerning midterm results.

Astarci P, Lacroix V, Glineur D, Poncelet A, Rubay J, El Khoury G, Noirhomme P, Verhels R.

Ann Vasc Surg. 2009 Sep-Oct;23(5):634-8. doi: 10.1016/j.avsg.2009.03.001. Epub 2009 May 21.


Assessing the exceptionality of coloured motifs in networks.

Schbath S, Lacroix V, Sagot MF.

EURASIP J Bioinform Syst Biol. 2009:616234. doi: 10.1155/2009/616234. Epub 2009 Jan 26.


An introduction to metabolic networks and their structural analysis.

Lacroix V, Cottret L, Thébault P, Sagot MF.

IEEE/ACM Trans Comput Biol Bioinform. 2008 Oct-Dec;5(4):594-617. doi: 10.1109/TCBB.2008.79. Review.


Comparison of bilateral internal thoracic artery revascularization using in situ or Y graft configurations: a prospective randomized clinical, functional, and angiographic midterm evaluation.

Glineur D, Hanet C, Poncelet A, D'hoore W, Funken JC, Rubay J, Kefer J, Astarci P, Lacroix V, Verhelst R, Etienne PY, Noirhomme P, El Khoury G.

Circulation. 2008 Sep 30;118(14 Suppl):S216-21. doi: 10.1161/CIRCULATIONAHA.107.751933.


Modes and cuts in metabolic networks: complexity and algorithms.

Acuña V, Chierichetti F, Lacroix V, Marchetti-Spaccamela A, Sagot MF, Stougie L.

Biosystems. 2009 Jan;95(1):51-60. doi: 10.1016/j.biosystems.2008.06.015. Epub 2008 Aug 3. Review.


Comparison of saphenous vein graft versus right gastroepiploic artery to revascularize the right coronary artery: a prospective randomized clinical, functional, and angiographic midterm evaluation.

Glineur D, Hanet C, Poncelet A, D'hoore W, Funken JC, Rubay J, Astarci P, Lacroix V, Verhelst R, Etienne PY, Noirhomme P, El Khoury G.

J Thorac Cardiovasc Surg. 2008 Aug;136(2):482-8. doi: 10.1016/j.jtcvs.2008.01.016. Epub 2008 May 19.


A numerical hemodynamic tool for predictive vascular surgery.

Marchandise E, Willemet M, Lacroix V.

Med Eng Phys. 2009 Jan;31(1):131-44. doi: 10.1016/j.medengphy.2008.04.015. Epub 2008 Jun 20.


An 18-year review of sports groin injuries in the elite hockey player: clinical presentation, new diagnostic imaging, treatment, and results.

Brown RA, Mascia A, Kinnear DG, Lacroix V, Feldman L, Mulder DS.

Clin J Sport Med. 2008 May;18(3):221-6. doi: 10.1097/JSM.0b013e318172831a.


eComment: Bilateral atrial appendage excision should be performed routinely in the surgical treatment of atrial fibrillation.

Oumeiri BE, Astarci P, Lacroix V.

Interact Cardiovasc Thorac Surg. 2008 Apr;7(2):205-6. doi: 10.1510/icvts.2007.159889A. No abstract available.


[Hilar adenopathy compressing the pulmonary arteries in the course of sarcoidosis].

Dumas de la Roque A, Maitre S, Resten A, Lacroix V, Humbert M, Simonneau G, Musset D.

Rev Mal Respir. 2007 Nov;24(9):1151-4. French.


Metabolic network visualization eliminating node redundance and preserving metabolic pathways.

Bourqui R, Cottret L, Lacroix V, Auber D, Mary P, Sagot MF, Jourdan F.

BMC Syst Biol. 2007 Jul 3;1:29.

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