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Items: 1 to 50 of 68

1.

Guidelines for cell-type heterogeneity quantification based on a comparative analysis of reference-free DNA methylation deconvolution software.

Decamps C, Privé F, Bacher R, Jost D, Waguet A; HADACA consortium, Houseman EA, Lurie E, Lutsik P, Milosavljevic A, Scherer M, Blum MGB, Richard M.

BMC Bioinformatics. 2020 Jan 13;21(1):16. doi: 10.1186/s12859-019-3307-2.

2.

Predicting the success of an invader: Niche shift versus niche conservatism.

Sherpa S, Guéguen M, Renaud J, Blum MGB, Gaude T, Laporte F, Akiner M, Alten B, Aranda C, Barre-Cardi H, Bellini R, Bengoa Paulis M, Chen XG, Eritja R, Flacio E, Foxi C, Ishak IH, Kalan K, Kasai S, Montarsi F, Pajović I, Petrić D, Termine R, Turić N, Vazquez-Prokopec GM, Velo E, Vignjević G, Zhou X, Després L.

Ecol Evol. 2019 Oct 25;9(22):12658-12675. doi: 10.1002/ece3.5734. eCollection 2019 Nov.

3.

Making the Most of Clumping and Thresholding for Polygenic Scores.

Privé F, Vilhjálmsson BJ, Aschard H, Blum MGB.

Am J Hum Genet. 2019 Dec 5;105(6):1213-1221. doi: 10.1016/j.ajhg.2019.11.001. Epub 2019 Nov 21.

PMID:
31761295
4.

Cold adaptation in the Asian tiger mosquito's native range precedes its invasion success in temperate regions.

Sherpa S, Blum MGB, Després L.

Evolution. 2019 Sep;73(9):1793-1808. doi: 10.1111/evo.13801. Epub 2019 Jul 22.

PMID:
31313825
5.

Unravelling the invasion history of the Asian tiger mosquito in Europe.

Sherpa S, Blum MGB, Capblancq T, Cumer T, Rioux D, Després L.

Mol Ecol. 2019 May;28(9):2360-2377. doi: 10.1111/mec.15071. Epub 2019 Apr 29.

PMID:
30849200
6.

Efficient Implementation of Penalized Regression for Genetic Risk Prediction.

Privé F, Aschard H, Blum MGB.

Genetics. 2019 May;212(1):65-74. doi: 10.1534/genetics.119.302019. Epub 2019 Feb 26.

PMID:
30808621
7.

Can secondary contact following range expansion be distinguished from barriers to gene flow?

Bertl J, Ringbauer H, Blum MGB.

PeerJ. 2018 Oct 1;6:e5325. doi: 10.7717/peerj.5325. eCollection 2018.

8.

Loter: A software package to infer local ancestry for a wide range of species.

Dias-Alves T, Mairal J, Blum MGB.

Mol Biol Evol. 2018 Jun 20. doi: 10.1093/molbev/msy126. [Epub ahead of print]

9.

Evaluation of redundancy analysis to identify signatures of local adaptation.

Capblancq T, Luu K, Blum MGB, Bazin E.

Mol Ecol Resour. 2018 Nov;18(6):1223-1233. doi: 10.1111/1755-0998.12906. Epub 2018 Jun 17.

PMID:
29802785
10.

Efficient analysis of large-scale genome-wide data with two R packages: bigstatsr and bigsnpr.

Privé F, Aschard H, Ziyatdinov A, Blum MGB.

Bioinformatics. 2018 Aug 15;34(16):2781-2787. doi: 10.1093/bioinformatics/bty185.

11.

Post-Treatment Mortality After Surgery and Stereotactic Body Radiotherapy for Early-Stage Non-Small-Cell Lung Cancer.

Stokes WA, Bronsert MR, Meguid RA, Blum MG, Jones BL, Koshy M, Sher DJ, Louie AV, Palma DA, Senan S, Gaspar LE, Kavanagh BD, Rusthoven CG.

J Clin Oncol. 2018 Mar 1;36(7):642-651. doi: 10.1200/JCO.2017.75.6536. Epub 2018 Jan 18.

PMID:
29346041
12.

Ultradeep sequencing of B and non-B HIV-1 subtypes: Viral diversity and drug resistance mutations before and after one month of antiretroviral therapy in naive patients.

Epaulard O, Signori-Schmuck A, Larrat S, Kulkarni O, Blum MG, Fusillier K, Blanc M, Leclercq P, François O, Morand P.

J Clin Virol. 2017 Oct;95:13-19. doi: 10.1016/j.jcv.2017.07.013. Epub 2017 Jul 25.

PMID:
28830014
13.

pcadapt: an R package to perform genome scans for selection based on principal component analysis.

Luu K, Bazin E, Blum MG.

Mol Ecol Resour. 2017 Jan;17(1):67-77. doi: 10.1111/1755-0998.12592. Epub 2016 Sep 7.

PMID:
27601374
14.

Identifying outlier loci in admixed and in continuous populations using ancestral population differentiation statistics.

Martins H, Caye K, Luu K, Blum MG, François O.

Mol Ecol. 2016 Oct;25(20):5029-5042. doi: 10.1111/mec.13822. Epub 2016 Sep 14.

PMID:
27565448
15.

Detecting Genomic Signatures of Natural Selection with Principal Component Analysis: Application to the 1000 Genomes Data.

Duforet-Frebourg N, Luu K, Laval G, Bazin E, Blum MG.

Mol Biol Evol. 2016 Apr;33(4):1082-93. doi: 10.1093/molbev/msv334. Epub 2015 Dec 29.

16.

HaploPOP: a software that improves population assignment by combining markers into haplotypes.

Duforet-Frebourg N, Gattepaille LM, Blum MG, Jakobsson M.

BMC Bioinformatics. 2015 Jul 31;16:242. doi: 10.1186/s12859-015-0661-6.

17.

Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage.

Merker M, Blin C, Mona S, Duforet-Frebourg N, Lecher S, Willery E, Blum MG, Rüsch-Gerdes S, Mokrousov I, Aleksic E, Allix-Béguec C, Antierens A, Augustynowicz-Kopeć E, Ballif M, Barletta F, Beck HP, Barry CE 3rd, Bonnet M, Borroni E, Campos-Herrero I, Cirillo D, Cox H, Crowe S, Crudu V, Diel R, Drobniewski F, Fauville-Dufaux M, Gagneux S, Ghebremichael S, Hanekom M, Hoffner S, Jiao WW, Kalon S, Kohl TA, Kontsevaya I, Lillebæk T, Maeda S, Nikolayevskyy V, Rasmussen M, Rastogi N, Samper S, Sanchez-Padilla E, Savic B, Shamputa IC, Shen A, Sng LH, Stakenas P, Toit K, Varaine F, Vukovic D, Wahl C, Warren R, Supply P, Niemann S, Wirth T.

Nat Genet. 2015 Mar;47(3):242-9. doi: 10.1038/ng.3195. Epub 2015 Jan 19.

PMID:
25599400
18.

Ultradeep pyrosequencing of NS3 to predict response to triple therapy with protease inhibitors in previously treated chronic hepatitis C patients.

Larrat S, Kulkarni O, Claude JB, Beugnot R, Blum MG, Fusillier K, Lupo J, Tremeaux P, Plages A, Marlu A, Duborjal H, Signori-Schmuck A, Francois O, Zarski JP, Morand P, Leroy V.

J Clin Microbiol. 2015 Feb;53(2):389-97. doi: 10.1128/JCM.02547-14. Epub 2014 Nov 19.

19.

Fine-scale human genetic structure in Western France.

Karakachoff M, Duforet-Frebourg N, Simonet F, Le Scouarnec S, Pellen N, Lecointe S, Charpentier E, Gros F, Cauchi S, Froguel P, Copin N; D.E.S.I.R. Study Group, Le Tourneau T, Probst V, Le Marec H, Molinaro S, Balkau B, Redon R, Schott JJ, Blum MG, Dina C; D E S I R Study Group.

Eur J Hum Genet. 2015 Jun;23(6):831-6. doi: 10.1038/ejhg.2014.175. Epub 2014 Sep 3.

20.

Genome scans for detecting footprints of local adaptation using a Bayesian factor model.

Duforet-Frebourg N, Bazin E, Blum MG.

Mol Biol Evol. 2014 Sep;31(9):2483-95. doi: 10.1093/molbev/msu182. Epub 2014 Jun 3.

21.

Nonstationary patterns of isolation-by-distance: inferring measures of local genetic differentiation with Bayesian kriging.

Duforet-Frebourg N, Blum MG.

Evolution. 2014 Apr;68(4):1110-23. doi: 10.1111/evo.12342. Epub 2014 Jan 26. Erratum in: Evolution. 2014 Sep;68(9):2745.

22.

Clinical statement on the role of the surgeon and surgical issues relating to computed tomography screening programs for lung cancer.

Rocco G, Allen MS, Altorki NK, Asamura H, Blum MG, Detterbeck FC, Dresler CM, Gossot D, Grondin SC, Jaklitsch MT, Mitchell JD, Newton JR Jr, Van Schil PE, Waddell TK, Wood DE.

Ann Thorac Surg. 2013 Jul;96(1):357-60. doi: 10.1016/j.athoracsur.2013.05.067. Review. No abstract available.

PMID:
23816098
23.

Treatment of stage I and II non-small cell lung cancer: Diagnosis and management of lung cancer, 3rd ed: American College of Chest Physicians evidence-based clinical practice guidelines.

Howington JA, Blum MG, Chang AC, Balekian AA, Murthy SC.

Chest. 2013 May;143(5 Suppl):e278S-e313S. doi: 10.1378/chest.12-2359.

PMID:
23649443
24.

Inferring population size changes with sequence and SNP data: lessons from human bottlenecks.

Gattepaille LM, Jakobsson M, Blum MG.

Heredity (Edinb). 2013 May;110(5):409-19. doi: 10.1038/hdy.2012.120. Epub 2013 Feb 20. Review.

25.

Anisotropic isolation by distance: the main orientations of human genetic differentiation.

Jay F, Sjödin P, Jakobsson M, Blum MG.

Mol Biol Evol. 2013 Mar;30(3):513-25. doi: 10.1093/molbev/mss259. Epub 2012 Nov 20.

26.

Genomic variation in seven Khoe-San groups reveals adaptation and complex African history.

Schlebusch CM, Skoglund P, Sjödin P, Gattepaille LM, Hernandez D, Jay F, Li S, De Jongh M, Singleton A, Blum MG, Soodyall H, Jakobsson M.

Science. 2012 Oct 19;338(6105):374-9. doi: 10.1126/science.1227721. Epub 2012 Sep 20.

27.

Identification of a new recurrent aurora kinase C mutation in both European and African men with macrozoospermia.

Ben Khelifa M, Coutton C, Blum MG, Abada F, Harbuz R, Zouari R, Guichet A, May-Panloup P, Mitchell V, Rollet J, Triki C, Merdassi G, Vialard F, Koscinski I, Viville S, Keskes L, Soulie JP, Rives N, Dorphin B, Lestrade F, Hesters L, Poirot C, Benzacken B, Jouk PS, Satre V, Hennebicq S, Arnoult C, Lunardi J, Ray PF.

Hum Reprod. 2012 Nov;27(11):3337-46. doi: 10.1093/humrep/des296. Epub 2012 Aug 11.

PMID:
22888167
28.

Resequencing data provide no evidence for a human bottleneck in Africa during the penultimate glacial period.

Sjödin P, E Sjöstrand A, Jakobsson M, Blum MG.

Mol Biol Evol. 2012 Jul;29(7):1851-60. doi: 10.1093/molbev/mss061. Epub 2012 Feb 1.

PMID:
22319141
29.

Predictions of native American population structure using linguistic covariates in a hidden regression framework.

Jay F, François O, Blum MG.

PLoS One. 2011 Jan 31;6(1):e16227. doi: 10.1371/journal.pone.0016227.

30.

Thymic malignancies.

Ettinger DS, Akerley W, Bepler G, Blum MG, Chang A, Cheney RT, Chirieac LR, D'Amico TA, Demmy TL, Govindan R, Grannis FW Jr, Jahan T, Johnson DH, Kessinger A, Komaki R, Kong FM, Kris MG, Krug LM, Le QT, Lennes IT, Martins R, O'Malley J, Osarogiagbon RU, Otterson GA, Patel JD, Pisters KM, Reckamp K, Riely GJ, Rohren E, Swanson SJ, Wood DE, Yang SC; National Comprehensive Cancer Network.

J Natl Compr Canc Netw. 2010 Nov;8(11):1302-15. No abstract available.

PMID:
21081786
31.

Deep divergences of human gene trees and models of human origins.

Blum MG, Jakobsson M.

Mol Biol Evol. 2011 Feb;28(2):889-98. doi: 10.1093/molbev/msq265. Epub 2010 Oct 7.

PMID:
20930054
32.

Zone I gunshot neck injury treated with common carotid and esophageal stent grafts.

Garcia-Toca M, Hayman A, Naughton P, Blum MG, Eskandari MK.

J Vasc Interv Radiol. 2010 Sep;21(9):1448-51. doi: 10.1016/j.jvir.2010.05.014. Epub 2010 Aug 5.

PMID:
20691609
33.

Non-small cell lung cancer.

Ettinger DS, Akerley W, Bepler G, Blum MG, Chang A, Cheney RT, Chirieac LR, D'Amico TA, Demmy TL, Ganti AK, Govindan R, Grannis FW Jr, Jahan T, Jahanzeb M, Johnson DH, Kessinger A, Komaki R, Kong FM, Kris MG, Krug LM, Le QT, Lennes IT, Martins R, O'Malley J, Osarogiagbon RU, Otterson GA, Patel JD, Pisters KM, Reckamp K, Riely GJ, Rohren E, Simon GR, Swanson SJ, Wood DE, Yang SC; NCCN Non-Small Cell Lung Cancer Panel Members.

J Natl Compr Canc Netw. 2010 Jul;8(7):740-801. Review. No abstract available.

PMID:
20679538
34.

Approximate Bayesian Computation (ABC) in practice.

Csilléry K, Blum MG, Gaggiotti OE, François O.

Trends Ecol Evol. 2010 Jul;25(7):410-8. doi: 10.1016/j.tree.2010.04.001. Epub 2010 May 18. Review.

PMID:
20488578
35.

HIV with contact tracing: a case study in approximate Bayesian computation.

Blum MG, Tran VC.

Biostatistics. 2010 Oct;11(4):644-60. doi: 10.1093/biostatistics/kxq022. Epub 2010 May 10.

PMID:
20457785
36.

Mucosal tube technique for creation of esophageal anastomosis after esophagectomy.

Maciver RH, Sundaresan S, DeHoyos AL, Sisco M, Blum MG.

Ann Thorac Surg. 2009 Jun;87(6):1703-7. doi: 10.1016/j.athoracsur.2009.03.057.

PMID:
19463582
37.

Phase II study of pemetrexed and carboplatin plus bevacizumab with maintenance pemetrexed and bevacizumab as first-line therapy for nonsquamous non-small-cell lung cancer.

Patel JD, Hensing TA, Rademaker A, Hart EM, Blum MG, Milton DT, Bonomi PD.

J Clin Oncol. 2009 Jul 10;27(20):3284-9. doi: 10.1200/JCO.2008.20.8181. Epub 2009 May 11.

PMID:
19433684
38.

Acute superior vena cava occlusion after stenting of tracheoesophageal fistula.

Kapadia MR, de Hoyos AL, Blum MG.

Ann Thorac Surg. 2009 Apr;87(4):1260-2. doi: 10.1016/j.athoracsur.2008.08.064.

PMID:
19324164
39.

The goat domestication process inferred from large-scale mitochondrial DNA analysis of wild and domestic individuals.

Naderi S, Rezaei HR, Pompanon F, Blum MG, Negrini R, Naghash HR, Balkiz O, Mashkour M, Gaggiotti OE, Ajmone-Marsan P, Kence A, Vigne JD, Taberlet P.

Proc Natl Acad Sci U S A. 2008 Nov 18;105(46):17659-64. doi: 10.1073/pnas.0804782105. Epub 2008 Nov 12.

40.

A deterministic model of admixture and genetic introgression: the case of Neanderthal and Cro-Magnon.

Forhan G, Martiel JL, Blum MG.

Math Biosci. 2008 Nov;216(1):71-6. doi: 10.1016/j.mbs.2008.08.004.

PMID:
18768141
41.

Demographic history of european populations of Arabidopsis thaliana.

François O, Blum MG, Jakobsson M, Rosenberg NA.

PLoS Genet. 2008 May 16;4(5):e1000075. doi: 10.1371/journal.pgen.1000075.

42.

Adenocarcinoma of the gastroesophageal junction after bariatric surgery.

Melstrom LG, Bentrem DJ, Salvino MJ, Blum MG, Talamonti MS, Printen KJ.

Am J Surg. 2008 Jul;196(1):135-8. doi: 10.1016/j.amjsurg.2007.07.026. Epub 2008 Apr 16.

PMID:
18417085
43.

A 23-year-old woman with sudden-onset dyspnea and chest pain penetrating to the back.

Kwon JS, Blum MG, Kalhan R.

Chest. 2008 Feb;133(2):574-8. doi: 10.1378/chest.07-1629. No abstract available.

PMID:
18252926
44.

Surgical considerations for the management and resection of esophageal gastrointestinal stromal tumors.

Blum MG, Bilimoria KY, Wayne JD, de Hoyos AL, Talamonti MS, Adley B.

Ann Thorac Surg. 2007 Nov;84(5):1717-23.

PMID:
17954092
45.

Successful management of recurrent Actinomyces esophagobronchial fistula with self-expanding covered esophageal stent.

Russell HM, de Hoyos AL, Blum MG.

J Thorac Cardiovasc Surg. 2007 Oct;134(4):1086-7. No abstract available.

46.

Prediction of group patterns in social mammals based on a coalescent model.

Durand E, Blum MG, François O.

J Theor Biol. 2007 Nov 21;249(2):262-70. Epub 2007 Jul 19.

PMID:
17869275
47.
48.

Low levels of genetic divergence across geographically and linguistically diverse populations from India.

Rosenberg NA, Mahajan S, Gonzalez-Quevedo C, Blum MG, Nino-Rosales L, Ninis V, Das P, Hegde M, Molinari L, Zapata G, Weber JL, Belmont JW, Patel PI.

PLoS Genet. 2006 Dec;2(12):e215.

49.

Sampling properties of homozygosity-based statistics for linkage disequilibrium.

Rosenberg NA, Blum MG.

Math Biosci. 2007 Jul;208(1):33-47. Epub 2006 Jul 27.

PMID:
17157882
50.

Predictors of acute lung injury and severe hypoxemia in patients undergoing operative talc pleurodesis.

Kuzniar TJ, Blum MG, Kasibowska-Kuzniar K, Mutlu GM.

Ann Thorac Surg. 2006 Dec;82(6):1976-81.

PMID:
17126094

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