DrLeonardoBottolo

McDermott-Roe C, Ye J, Ahmed R, Sun XM, Serafin A, Ware J, Bottolo L, Mucket P, Canas X, Zhang J, Rowe GC, Buchan R, Lu H, Braithwaite A, Mancici M, Hauton D, Marti R, García-Arumí E, Hubner N, Jacob H, Serikawa T, Zidek P, Papousek F, Kolar F, Cardona M, Ruiz-Meana M, García-Dorado D, Comella JX, Felkin LE, Barton PJ, Arany Z, Pravenec M, Sanchis D, Cook SAet al., 2011, Endonuclease G is a novel determinant of cardiac hypertrophy and mitochondrial function, Nature, Vol: 478, Pages: 114-118

• Cite

Walley AJ, Jacobson P, Falchi M, Bottolo L, Andersson JC, Petretto E, Bonnefond A, Vaillant E, Lecoeur C, Vatin V, Jernas M, Balding D, Petteni M, Park YS, Aitman T, Richardson S, Sjostrom L, Carlsson LMS, Froguel Pet al., 2011, Differential coexpression analysis of obesity-associated networks in human subcutaneous adipose tissue, International Journal of Obesity, Vol: 36, Pages: 137-147, ISSN: 0307-0565

Objective:To use a unique obesity-discordant sib-pair study design to combine differential expression analysis, expression quantitative trait loci (eQTLs) mapping and a coexpression regulatory network approach in subcutaneous human adipose tissue to identify genes relevant to the obese state.Study design:Genome-wide transcript expression in subcutaneous human adipose tissue was measured using Affymetrix U133 Plus 2.0 microarrays (Affymetrix, Santa Clara, CA, USA), and genome-wide genotyping data was obtained using an Applied Biosystems (Applied Biosystems; Life Technologies, Carlsbad, CA, USA) SNPlex linkage panel.Subjects:A total of 154 Swedish families ascertained through an obese proband (body mass index (BMI) >30 kg m−2) with a discordant sibling (BMI>10 kg m−2 less than proband).Results:Approximately one-third of the transcripts were differentially expressed between lean and obese siblings. The cellular adhesion molecules (CAMs) KEGG grouping contained the largest number of differentially expressed genes under cis-acting genetic control. By using a novel approach to contrast CAMs coexpression networks between lean and obese siblings, a subset of differentially regulated genes was identified, with the previously GWAS obesity-associated neuronal growth regulator 1 (NEGR1) as a central hub. Independent analysis using mouse data demonstrated that this finding of NEGR1 is conserved across species.Conclusion:Our data suggest that in addition to its reported role in the brain, NEGR1 is also expressed in subcutaneous adipose tissue and acts as a central ‘hub’ in an obesity-related transcript network.

• Abstract
• Author Web Link
• Open Access Link
• Cite

Bottolo L, Chadeau-Hyam M, Hastie DI, Langley SR, Petretto E, Tiret L, Tregouet D, Richardson Set al., 2011, ESS++: a C++ objected-oriented algorithm for Bayesian stochastic search model exploration, Bioinformatics, Vol: 27, Pages: 587-588, ISSN: 1367-4803

Summary:ESS++ is a C++ implementation of a fully Bayesian variable selection approach for single and multiple response linear regression. ESS++ works well both when the number of observations is larger than the number of predictors and in the ‘large p, small n’ case. In the current version, ESS++ can handle several hundred observations, thousands of predictors and a few responses simultaneously. The core engine of ESS++ for the selection of relevant predictors is based on Evolutionary Monte Carlo. Our implementation is open source, allowing community-based alterations and improvements.Availability: C++ source code and documentation including compilation instructions are available under GNU licence at http://bgx.org.uk/software/ESS.html.

• Abstract
• Author Web Link
• Open Access Link
• Cite

Heinig M, Petretto E, Wallace C, Bottolo L, Rotival M, Lu H, Li Y, Sarwar R, Langley SR, Bauerfeind A, Hummel O, Lee Y-A, Paskas S, Rintisch C, Saar K, Cooper J, Buchan R, Gray EE, Cyster JG, Erdmann J, Hengstenberg C, Maouche S, Ouwehand WH, Rice CM, Samani NJ, Schunkert H, Goodall AH, Schulz H, Roider HG, Vingron M, Blankenberg S, Muenzel T, Zeller T, Szymczak S, Ziegler A, Tiret L, Smyth DJ, Pravenec M, Aitman TJ, Cambien F, Clayton D, Todd JA, Hubner N, Cook SAet al., 2010, A <i>trans</i>-acting locus regulates an anti-viral expression network and type 1 diabetes risk, NATURE, Vol: 467, Pages: 460-464, ISSN: 0028-0836

• Author Web Link
• Cite
• Citations: 216

Petretto E, Bottolo L, Langley SR, Heinig M, McDermott-Roe C, Sarwar R, Pravenec M, Huebner N, Aitman TJ, Cook SA, Richardson Set al., 2010, New Insights into the Genetic Control of Gene Expression using a Bayesian Multi-tissue Approach, PLOS COMPUTATIONAL BIOLOGY, Vol: 6, ISSN: 1553-734X

• Author Web Link
• Open Access Link
• Cite
• Citations: 52

Bottolo L, Richardson S, 2010, Evolutionary Stochastic Search for Bayesian Model Exploration, BAYESIAN ANALYSIS, Vol: 5, Pages: 583-618, ISSN: 1931-6690

• Author Web Link
• Cite
• Citations: 91

Bellini F, Bottolo L, 2009, Misspecification and Domain Issues in Fitting Garch(1,1) Models: A Monte Carlo Investigation, COMMUNICATIONS IN STATISTICS-SIMULATION AND COMPUTATION, Vol: 38, Pages: 31-45, ISSN: 0361-0918

• Author Web Link
• Cite
• Citations: 6

Bickel P, Buehlmann P, Yao Q, Samworth R, Hall P, Titterington DM, Xue J-H, Anagnostopoulos C, Tasoullis DK, Zhang W, Xia Y, Johnstone IM, Richardson S, Bottolo L, Kent JT, Adragni K, Cook RD, Gather U, Guddat C, Greenshtein E, James GM, Radchenko P, Leng C, Wang H, Levina E, Zhu J, Li R, Liu Y, Longford NT, Luo W, Baxter PD, Taylor CC, Marron JS, Morris JS, Robert CP, Yu K, Zhang C-H, Zhang HH, Zhou HH, Lin X, Zou Het al., 2008, Sure independence screening for ultrahigh dimensional feature space Discussion, Publisher: WILEY

• Author Web Link
• Cite
• Citations: 10

Frazer KA, Ballinger DG, Cox DR, Hinds DA, Stuve LL, Gibbs RA, Belmont JW, Boudreau A, Hardenbol P, Leal SM, Pasternak S, Wheeler DA, Willis TD, Yu F, Yang H, Zeng C, Gao Y, Hu H, Hu W, Li C, Lin W, Liu S, Pan H, Tang X, Wang J, Wang W, Yu J, Zhang B, Zhang Q, Zhao H, Zhao H, Zhou J, Gabriel SB, Barry R, Blumenstiel B, Camargo A, Defelice M, Faggart M, Goyette M, Gupta S, Moore J, Nguyen H, Onofrio RC, Parkin M, Roy J, Stahl E, Winchester E, Ziaugra L, Altshuler D, Shen Y, Yao Z, Huang W, Chu X, He Y, Jin L, Liu Y, Shen Y, Sun W, Wang H, Wang Y, Wang Y, Xiong X, Xu L, Waye MMY, Tsui SKW, Wong JT-F, Galver LM, Fan J-B, Gunderson K, Murray SS, Oliphant AR, Chee MS, Montpetit A, Chagnon F, Ferretti V, Leboeuf M, Olivier J-F, Phillips MS, Roumy S, Sallee C, Verner A, Hudson TJ, Kwok P-Y, Cai D, Koboldt DC, Miller RD, Pawlikowska L, Taillon-Miller P, Xiao M, Tsui L-C, Mak W, Song YQ, Tam PKH, Nakamura Y, Kawaguchi T, Kitamoto T, Morizono T, Nagashima A, Ohnishi Y, Sekine A, Tanaka T, Tsunoda T, Deloukas P, Bird CP, Delgado M, Dermitzakis ET, Gwilliam R, Hunt S, Morrison J, Powell D, Stranger BE, Whittaker P, Bentley DR, Daly MJ, de Bakker PIW, Barrett J, Chretien YR, Maller J, McCarroll S, Patterson N, Pe'er I, Price A, Purcell S, Richter DJ, Sabeti P, Saxena R, Schaffner SF, Sham PC, Varilly P, Altshuler D, Stein LD, Krishnan L, Smith AV, Tello-Ruiz MK, Thorisson GA, Chakravarti A, Chen PE, Cutler DJ, Kashuk CS, Lin S, Abecasis GR, Guan W, Li Y, Munro HM, Qin ZS, Thomas DJ, McVean G, Auton A, Bottolo L, Cardin N, Eyheramendy S, Freeman C, Marchini J, Myers S, Spencer C, Stephens M, Donnelly P, Cardon LR, Clarke G, Evans DM, Morris AP, Weir BS, Tsunoda T, Johnson TA, Mullikin JC, Sherry ST, Feolo M, Skol Aet al., 2007, A second generation human haplotype map of over 3.1 million SNPs, NATURE, Vol: 449, Pages: 851-U3, ISSN: 0028-0836

• Author Web Link
• Cite
• Citations: 4716

Sabeti PC, Varilly P, Fry B, Lohmueller J, Hostetter E, Cotsapas C, Xie X, Byrne EH, McCarroll SA, Gaudet R, Schaffner SF, Lander ESet al., 2007, Genome-wide detection and characterization of positive selection in human populations, NATURE, Vol: 449, Pages: 913-U12, ISSN: 0028-0836

• Author Web Link
• Cite
• Citations: 1334

Bellini F, Bottolo L, 2007, Stationarity domains for δ-power Garch process with heavy tails, STATISTICS & PROBABILITY LETTERS, Vol: 77, Pages: 1418-1427, ISSN: 0167-7152

• Author Web Link
• Cite
• Citations: 3

Myers S, Spencer CCA, Auton A, Bottolo L, Freeman C, Donnelly P, McVean Get al., 2006, The distribution and causes of meiotic recombination in the human genome, Biochemical-Society Focused Meeting on Compartmentalization of Cyclic AMP Signalling, Publisher: PORTLAND PRESS LTD, Pages: 526-530, ISSN: 0300-5127

• Author Web Link
• Cite
• Citations: 62

Altshuler D, Brooks LD, Chakravarti A, Collins FS, Daly MJ, Donnelly P, Gibbs RA, Belmont JW, Boudreau A, Leal SM, Hardenbol P, Pasternak S, Wheeler DA, Willis TD, Yu FL, Yang HM, Zeng CQ, Gao Y, Hu HR, Hu WT, Li CH, Lin W, Liu SQ, Pan H, Tang XL, Wang J, Wang W, Yu J, Zhang B, Zhang QR, Zhao HB, Zhao H, Zhou J, Gabriel SB, Barry R, Blumenstiel B, Camargo A, Defelice M, Faggart M, Goyette M, Gupta S, Moore J, Nguyen H, Onofrio RC, Parkin M, Roy J, Stahl E, Winchester E, Ziaugra L, Shen Y, Yao ZJ, Huang W, Chu X, He YG, Jin L, Liu YF, Shen YY, Sun WW, Wang HF, Wang Y, Wang Y, Wang Y, Xiong XY, Xu L, Waye MMY, Tsui SKW, Xue H, Wong JTF, Galver ILM, Fan JB, Murray SS, Oliphant AR, Chee MS, Montpetit A, Chagnon F, Ferretti V, Leboeuf M, Olivier JF, Phillips MS, Roumy S, Sallée C, Verner A, Hudson TJ, Frazer KA, Ballinger DG, Cox DR, Hinds DA, Stuve LL, Kwok PY, Cai DM, Koboldt DC, Miller RD, Pawlikowska L, Taillon-Miller P, Xiao M, Tsui LC, Mak W, Sham PC, Song YQ, Tam PKH, Nakamura Y, Kawaguchi T, Kitamoto T, Morizono T, Nagashima A, Ohnishi Y, Sekine A, Tanaka T, Tsunoda T, Deloukas P, Bird CP, Delgado M, Dermitzakis ET, Gwilliam R, Hunt S, Morrison J, Powell D, Stranger BE, Whittaker P, Bentley DR, Daly MJ, de Bakker PIW, Barrett J, Fry B, Maller J, McCarroll S, Patterson N, Pe'er I, Purcell S, Richter DJ, Sabeti P, Saxena R, Schaffner SF, Varilly P, Stein LD, Krishnan L, Smith AV, Thorisson GA, Chen PE, Cutler DJ, Kashuk CS, Lin S, Abecasis GR, Guan WH, Munro HM, Qin ZHS, Thomas DJ, McVean G, Bottolo L, Eyheramendy S, Freeman C, Marchini J, Myers S, Spencer C, Stephens M, Cardon LR, Clarke G, Evans DM, Morris AP, Weir BS, Tsunoda T, Mullikin JC, Sherry ST, Feolo M, Zhang HC, Zeng CQ, Zhao H, Matsuda I, Fukushima Y, Macer DR, Suda E, Rotimi CN, Adebamowo CA, Ajayi I, Aniagwu T, Marshall PA, Nkwodimmah C, Royal CDM, Leppert MF, Dixon M, Peiffer A, Qiu RZ, Kent A, Kato K, Niikawa N, Adewole IF, Knoppers BM, Foster MW, Clayton EW, Muzny D, Nazareth L, Sodergren E, Weinset al., 2005, A haplotype map of the human genome, NATURE, Vol: 437, Pages: 1299-1320, ISSN: 0028-0836

• Author Web Link
• Cite
• Citations: 4322

Myers S, Bottolo L, Freeman C, McVean G, Donnelly Pet al., 2005, A fine-scale map of recombination rates and hotspots across the human genome, SCIENCE, Vol: 310, Pages: 321-324, ISSN: 0036-8075

• Author Web Link
• Cite
• Citations: 796