Publications

Association of HLA Genetic Risk Burden With Disease Phenotypes in Multiple Sclerosis.
Isobe N, Keshavan A, Gourraud PA, Zhu AH, Datta E, Schlaeger R, Caillier SJ, Santaniello A, Lizée A, Himmelstein DS, Baranzini SE, Hollenbach J, Cree BA, Hauser SL, Oksenberg JR, Henry RG.
JAMA neurology. 2016 May 31
PMID:  27244296

Meta-analysis of genome-wide association studies reveals genetic overlap between Hodgkin lymphoma and multiple sclerosis.
Khankhanian P, Cozen W, Himmelstein DS, Madireddy L, Din L, van den Berg A, Matsushita T, Glaser SL, Moré JM, Smedby KE, Baranzini SE, Mack TM, Lizée A, de Sanjosé S, Gourraud PA, Nieters A, Hauser SL, Cocco P, Maynadié M, Foretová L, Staines A, Delahaye-Sourdeix M, Li D, Bhatia S, Melbye M, Onel K, Jarrett R, McKay JD, Oksenberg JR, Hjalgrim H.
Int J Epidemiol. 2016 Mar 12.
PMID:  26971321

A validated gene regulatory network and GWAS identifies early regulators of T cell-associated diseases.
Gustafsson M, Gawel DR, Alfredsson L, Baranzini S, Björkander J, Blomgran R, Hellberg S, Eklund D, Ernerudh J, Kockum I, Konstantinell A, Lahesmaa R, Lentini A, Liljenström HR, Mattson L, Matussek A, Mellergård J, Mendez M, Olsson T, Pujana MA, Rasool O, Serra-Musach J, Stenmarker M, Tripathi S, Viitala M, Wang H, Zhang H, Nestor CE, Benson M.
Sci Transl Med. 2015 Nov 11
PMID: 26560356

Class II HLA interactions modulate genetic risk for multiple sclerosis.
Moutsianas L, Jostins L, Beecham AH, Dilthey AT, Xifara DK, Ban M, Shah TS, Patsopoulos NA, Alfredsson L, Anderson CA, Attfield KE, Baranzini SE, Barrett J, Binder TM, Booth D, Buck D, Celius EG, Cotsapas C, D'Alfonso S, Dendrou CA, Donnelly P, Dubois B, Fontaine B, Lar Fugger L, Goris A, Gourraud PA, Graetz C, Hemmer B, Hillert J; International IBD Genetics Consortium (IIBDGC), Kockum I, Leslie S, Lill CM, Martinelli-Boneschi F, Oksenberg JR, Olsson T, Oturai A, Saarela J, Søndergaard HB, Spurkland A, Taylor B, Winkelmann J, Zipp F, Haines JL, Pericak-Vance MA, Spencer CC, Stewart G, Hafler DA, Ivinson AJ, Harbo HF, Hauser SL, De Jager PL, Compston A, McCauley JL, Sawcer S, McVean G; International Multiple Sclerosis Genetics Consortium.
Nat Genet. 2015 Oct
PMID:  26343388

iCTNet2: integrating heterogeneous biological interactions to understand complex traits.
Wang L, Himmelstein DS, Santaniello A, Parvin M, Baranzini SE.
F1000 Research 2015 Aug.
PMID:   26834985

Assessing the Power of Exome Chips.
Page CM, Baranzini SE, Mevik BH, Bos SD, Harbo HF, Andreassen BK.
PLoS One. 2015 Oct 5.
PMID: 26437075

A non-synonymous single-nucleotide polymorphism associated with multiple sclerosis risk affects the EVI5 interactome.
Didonna A, Isobe N, Caillier SJ, Li KH, Burlingame AL, Hauser SL, Baranzini SE, Patsopoulos NA, Oksenberg JR.
Hum Mol Genet. 2015 Oct 3.
PMID: 26433934

Genetic contribution to multiple sclerosis risk among Ashkenazi Jews.
Khankhanian P, Matsushita T, Madireddy L, Lizée A, Din L, Moré JM, Gourraud PA, Hauser SL, Baranzini SE, Oksenberg JR.
BMC Med Genet. 2015 Jul 28.
PMID: 26212423

Heterogeneous Network Edge Prediction: A Data Integration Approach to Prioritize Disease-Associated Genes.
Himmelstein DS, Baranzini SE.
PLoS Comput Biol. 2015 Jul 9.
PMID: 26158728

A robust type I interferon gene signature from blood RNA defines quantitative but not qualitative differences between three major IFNβ drugs in the treatment of multiple sclerosis.
Harari D, Orr I, Rotkopf R, Baranzini SE, Schreiber G.
Hum Mol Genet. 2015 Feb 26.
PMID: 25721402

SNP imputation bias reduces effect size determination.
Khankhanian P, Din L, Caillier SJ, Gourraud PA, Baranzini SE.
Front Genet. 2015 Feb 9.
PMID: 25709616

Genetic associations with brain cortical thickness in multiple sclerosis.
Matsushita T, Madireddy L, Sprenger T, Khankhanian P, Magon S, Naegelin Y, Caverzasi E, Lindberg RL, Kappos L, Hauser SL, Oksenberg JR, Henry R, Pelletier D, Baranzini SE.
Genes Brain Behav. 2015 Feb 12.
PMID: 25684059

Whole genome sequences of 2 octogenarians with sustained cognitive abilities.
Nickles D, Madireddy L, Patel N, Isobe N, Miller BL, Baranzini SE, Kramer JH, Oksenberg JR.
Neurobiol Aging. 2015 Mar.
PMID: 25618617

iPINBPA: an integrative network-based functional module discovery tool for genome-wide association studies.
Wang L, Mousavi P, Baranzini SE.
Pac Symp Biocomput. 2015.
PMID: 25592586

Interferon-beta affects mitochondrial activity in CD4+ lymphocytes: Implications for mechanism of action in multiple sclerosis.
Haghikia A, Faissner S, Pappas D, Pula B, Akkad DA, Arning L, Ruhrmann S, Duscha A, Gold R, Baranzini SE, Malhotra S, Montalban X, Comabella M, Chan A.
Mult Scler. 2014 Dec 5.
PMID: 25480861

Exome Sequencing in 32 Patients with Anophthalmia/Microphthalmia and Developmental Eye Defects.
FSlavotinek AM, Garcia ST, Chandratillake G, Bardakjian T, Ullah E, Wu D, Umeda K, Lao R, Tang PL, Wan E, Madireddy L, Lyalina S, Mendelsohn BA, Dugan S, Tirch J, Tischler R, Harris J, Clark MJ, Chervitz S, Patwardhan A, West JM, Ursell P, de Alba Campomanes A, Schneider A, Kwok PY, Baranzini S, Chen RM.
Clin Genet. 2014 Dec 2.
PMID: 25457163

Prognostic biomarkers of IFNb therapy in multiple sclerosis patients.
Baranzini SE, Madireddy LR, Cromer A, D'Antonio M, Lehr L, Beelke M, Farmer P, Battaglini M, Caillier SJ, Stromillo ML, De Stefano N, Monnet E, Cree BA.
Mult Scler. 2014 Nov 12.
PMID: 25392319

Modules, networks and systems medicine for understanding disease and aiding diagnosis.
Gustafsson M, Nestor CE, Zhang H, Barabási AL, Baranzini S, Brunak S, Chung KF, Federoff HJ, Gavin AC, Meehan RR, Picotti P, Pujana MÀ, Rajewsky N, Smith KG, Sterk PJ, Villoslada P, Benson M.
Genome Med. 2014 Oct 17.
PMID: 25473422

Symposium 2-1 The autoimmunome: Similarities and differences among genetic susceptibility to common immune-related diseases.
Baranzini SE.
Nihon Rinsho Meneki Gakkai Kaishi. 2014.
PMID: 25297131

Precision medicine in chronic disease management: The MS BioScreen.
Gourraud PA, Henry R, Cree BA, Crane JC, Lizee A, Olson MP, Santaniello AV, Datta E, Zhu AH, Bevan CJ, Gelfand JM, Graves JA, Goodin DE, Green A, von Büdingen HC, Waubant E, Zamvil SS, Crabtree-Hartman E, Nelson S, Baranzini SE, Hauser SL.
Ann Neurol. 2014 Sep 27.
PMID: 25263997

PINBPA: Cytoscape app for network analysis of GWAS data.
Wang L, Matsushita T, Madireddy L, Mousavi P, Baranzini S.
Bioinformatics. 2014 Sep 25.
PMID: 25260698

The role of antiproliferative gene Tob1 in the immune system.
Baranzini SE.
Clin Exp Neuroimmunol. 2014 Jun 1.
PMID: 25071870

Rituximab efficiently depletes increased CD20-expressing T cells in multiple sclerosis patients.
Palanichamy A, Jahn S, Nickles D, Derstine M, Abounasr A, Hauser SL, Baranzini SE, Leppert D, von Büdingen HC.
J Immunol. 2014 Jul 15.
PMID: 24928997

Blood miRNA expression pattern is a possible risk marker for natalizumab-associated progressive multifocal leukoencephalopathy in multiple sclerosis patients.
Muñoz-Culla M, Irizar H, Castillo-Triviño T, Sáenz-Cuesta M, Sepúlveda L, Lopetegi I, de Munain AL, Olascoaga J, Baranzini S, Otaegui D.
Mult Scler. 2014 May 22.
PMID: 24852919

Astrocyte-encoded positional cues maintain sensorimotor circuit integrity.
Molofsky AV, Kelley KW, Tsai HH, Redmond SA, Chang SM, Madireddy L, Chan JR, Baranzini SE, Ullian EM, Rowitch DH.
Nature. 2014 May 8.
PMID: 24776795

Parallel states of pathological Wnt signaling in neonatal brain injury and colon cancer.
Fancy SP, Harrington EP, Baranzini SE, Silbereis JC, Shiow LR, Yuen TJ, Huang EJ, Lomvardas S, Rowitch DH.
Nat Neurosci. 2014 Apr 17.
PMID: 24609463

The autoimmune disease-associated transcription factors EOMES and TBX21 are dysregulated in multiple sclerosis and define a molecular subtype of disease.
Parnell GP, Gatt PN, Krupa M, Nickles D, McKay FC, Schibeci SD, Batten M, Baranzini S, Henderson A, Barnett M, Slee M, Vucic S, Stewart GJ, Booth DR.
Clin Immunol. 2014 Mar.
PMID: 24495857

Naive CD4 T-cell activation identifies MS patients having rapid transition to progressive MS.
Zastepa E, Fitz-Gerald L, Hallett M, Antel J, Bar-Or A, Baranzini S, Lapierre Y, Haegert DG.
Neurology. 2014 Feb 25.
PMID: 24453076

A gene pathway analysis highlights the role of cellular adhesion molecules in multiple sclerosis susceptibility.
Damotte V, Guillot-Noel L, Patsopoulos NA, Madireddy L, El Behi M; International Multiple Sclerosis Genetics Consortium; Wellcome Trust Case Control Consortium 2, De Jager PL, Baranzini SE, Cournu-Rebeix I, Fontaine B.
Genes Immun. 2014 Mar 15.
PMID: 24430173

Sequencing of the IL6 gene in a case-control study of cerebral palsy in children.
Khankhanian P, Baranzini SE, Johnson BA, Madireddy L, Nickles D, Croen LA, Wu YW.
BMC Med Genet. 2013 Dec 7.
PMID: 24314052

Gene expression profiling in MS: a fulfilled promise?
Baranzini SE.
Mult Scler. 2013 Dec 19.
PMID: 24277731

Analysis of immune-related loci identifies 48 new susceptibility variants for multiple sclerosis.
International Multiple Sclerosis Genetics Consortium (IMSGC), Beecham AH, Patsopoulos NA, Xifara DK, Davis MF, Kemppinen A, Cotsapas C, Shah TS, Spencer C, Booth D, Goris A, Oturai A, Saarela J, Fontaine B, Hemmer B, Martin C, Zipp F, D'Alfonso S, Martinelli-Boneschi F, Taylor B, Harbo HF, Kockum I, Hillert J, Olsson T, Ban M, Oksenberg JR, Hintzen R, Barcellos LF; Wellcome Trust Case Control Consortium 2 (WTCCC2); International IBD Genetics Consortium (IIBDGC), Agliardi C, Alfredsson L, Alizadeh M, Anderson C, Andrews R, Søndergaard HB, Baker A, Band G, Baranzini SE, Barizzone N, Barrett J, Bellenguez C, Bergamaschi L, Bernardinelli L, Berthele A, Biberacher V, Binder TM, Blackburn H, Bomfim IL, Brambilla P, Broadley S, Brochet B, Brundin L, Buck D, Butzkueven H, Caillier SJ, Camu W, Carpentier W, Cavalla P, Celius EG, Coman I, Comi G, Corrado L, Cosemans L, Cournu-Rebeix I, Cree BA, Cusi D, Damotte V, Defer G, Delgado SR, Deloukas P, di Sapio A, Dilthey AT, Donnelly P, Dubois B, Duddy M, Edkins S, Elovaara I, Esposito F, Evangelou N, Fiddes B, Field J, Franke A, Freeman C, Frohlich IY, Galimberti D, Gieger C, Gourraud PA, Graetz C, Graham A, Grummel V, Guaschino C, Hadjixenofontos A, Hakonarson H, Halfpenny C, Hall G, Hall P, Hamsten A, Harley J, Harrower T, Hawkins C, Hellenthal G, Hillier C, Hobart J, Hoshi M, Hunt SE, Jagodic M, Jelčić I, Jochim A, Kendall B, Kermode A, Kilpatrick T, Koivisto K, Konidari I, Korn T, Kronsbein H, Langford C, Larsson M, Lathrop M, Lebrun-Frenay C, Lechner-Scott J, Lee MH, Leone MA, Leppä V, Liberatore G, Lie BA, Lill CM, Lindén M, Link J, Luessi F, Lycke J, Macciardi F, Männistö S, Manrique CP, Martin R, Martinelli V, Mason D, Mazibrada G, McCabe C, Mero IL, Mescheriakova J, Moutsianas L, Myhr KM, Nagels G, Nicholas R, Nilsson P, Piehl F, Pirinen M, Price SE, Quach H, Reunanen M, Robberecht W, Robertson NP, Rodegher M, Rog D, Salvetti M, Schnetz-Boutaud NC, Sellebjerg F, Selter RC, Schaefer C, Shaunak S, Shen L, Shields S, Siffrin V, Slee M, Sorensen PS, Sorosina M, Sospedra M, Spurkland A, Strange A, Sundqvist E, Thijs V, Thorpe J, Ticca A, Tienari P, van Duijn C, Visser EM, Vucic S, Westerlind H, Wiley JS, Wilkins A, Wilson JF, Winkelmann J, Zajicek J, Zindler E, Haines JL, Pericak-Vance MA, Ivinson AJ, Stewart G, Hafler D, Hauser SL, Compston A, McVean G, De Jager P, Sawcer SJ, McCauley JL.
Nat Genet. 2013 Nov.
PMID: 24076602

Opposite Roles of NMDA Receptors in Relapsing and Primary Progressive Multiple Sclerosis.
Rossi S, Studer V, Moscatelli A, Motta C, Coghe G, Fenu G, Caillier S, Buttari F, Mori F, Barbieri F, Castelli M, De Chiara V, Monteleone F, Mancino R, Bernardi G, Baranzini SE, Marrosu MG, Oksenberg JR, Centonze D.
PLoS One. 2013 Jun 28.
PMID: 23840674

Expression profiling of Aldh1l1-precursors in the developing spinal cord reveals glial lineage-specific genes and direct Sox9-Nfe2l1 interactions.
Molofsky AV, Glasgow SM, Chaboub LS, Tsai HH, Murnen AT, Kelley KW, Fancy SP, Yuen TJ, Madireddy L, Baranzini S, Deneen B, Rowitch DH, Oldham MC.
Glia. 2013 Jul 10. doi: 10.1002/glia.22538.
PMID: 23840004

Tob1 plays a critical role in the activation of encephalitogenic T cells in CNS autoimmunity.
Schulze-Topphoff U, Casazza S, Varrin-Doyer M, Pekarek K, Sobel RA, Hauser SL, Oksenberg JR, Zamvil SS, Baranzini SE.
J Exp Med. 2013 Jun 24.
PMID: 23797093

Blood RNA profiling in a large cohort of multiple sclerosis patients and healthy controls.
Nickles D, Chen HP, Li MM, Khankhanian P, Madireddy L, Caillier SJ, Santaniello A, Cree BA, Pelletier D, Hauser SL, Oksenberg JR, Baranzini SE.
Hum Mol Genet. 2013 Jun 19.
PMID: 23748426

Network-Based Multiple Sclerosis Pathway Analysis with GWAS Data from 15,000 Cases and 30,000 Controls.
International Multiple Sclerosis Genetics Consortium; Sergio E. Baranzini, Pouya Khankhanian, Nikolaos A. Patsopoulos, Michael Li, Jim Stankovich, Chris Cotsapas, Helle Bach Søndergaard, Maria Ban, Nadia Barizzone, Laura Bergamaschi, David Booth, Dorothea Buck, Paola Cavalla, Elisabeth G. Celius, Manuel Comabella, Giancarlo Comi, Alastair Compston, Isabelle Cournu-Rebeix, Sandra D’alfonso, Vincent Damotte, Lennox Din, Bénédicte Dubois, Irina Elovaara, Federica Esposito, Bertrand Fontaine, Andre Franke, An Goris, Pierre-Antoine Gourraud, Christiane Graetz, Franca R. Guerini, Léna Guillot-Noel, David Hafler, Hakon Hakonarson, Per Hall, Anders Hamsten, Hanne F. Harbo, Bernhard Hemmer, Jan Hillert, Anu Kemppinen, Ingrid Kockum, Keijo Koivisto, Malin Larsson, Mark Lathrop, Maurizio Leone, Christina M. Lill, Fabio Macciardi, Roland Martin, Vittorio Martinelli, Filippo Martinelli-Boneschi, Jacob L. McCauley, Kjell-Morten Myhr, Paola Naldi, Tomas Olsson, Annette Oturai, Margaret A. Pericak-Vance, Franco Perla, Mauri Reunanen, Janna Saarela, Safa Saker-Delye, Marco Salvetti, Finn Sellebjerg, Per Soelberg Sørensen, Anne Spurkland, Graeme Stewart, Bruce Taylor, Pentti Tienari, Juliane Winkelmann, Wellcome Trust Case Control Consortium 2 Frauke Zipp, Adrian J. Ivinson, Jonathan L. Haines, Stephen Sawcer, Philip DeJager, Stephen L. Hauser, Jorge R. Oksenberg.
Am J Hum Genet. 2013 May 22.
PMID: 23731539

Hippocampal demyelination and memory dysfunction are associated with increased levels of the neuronal microRNA miR-124 and reduced AMPA receptors.
Dutta R, Chomyk AM, Chang A, Ribaudo MV, Deckard SA, Doud MK, Edberg DD, Bai B, Li M, Baranzini SE, Fox RJ, Staugaitis SM, Macklin WB, Trapp BD.
Ann Neurol. 2013 May;73(5):637-45.
PMID: 23595422

A genome-wide association study of brain lesion distribution in multiple sclerosis.
Gourraud PA, Sdika M, Khankhanian P, Henry RG, Beheshtian A, Matthews PM, Hauser SL, Oksenberg JR, Pelletier D, Baranzini SE.
Brain. 2013 Apr;136(Pt 4):1012-24.
PMID: 23412934

Transcriptional expression patterns triggered by chemically distinct neuroprotective molecules.
Pappas DJ, Gabatto PA, Oksenberg D, Khankhanian P, Baranzini SE, Gan L, Oksenberg JR.
Neuroscience. 2012 Dec 13;226:10-20.
PMID: 22986168

In depth comparison of an individual's DNA and its lymphoblastoid cell line using whole genome sequencing.
Nickles D, Madireddy L, Yang S, Khankhanian P, Lincoln S, Hauser SL, Oksenberg JR, Baranzini SE.
BMC Genomics. 2012 Sep 14;13:477.
PMID: 22974163

Janus-like opposing roles of CD47 in autoimmune brain inflammation in humans and mice.
Han MH, Lundgren DH, Jaiswal S, Chao M, Graham KL, Garris CS, Axtell RC, Ho PP, Lock CB, Woodard JI, Brownell SE, Zoudilova M, Hunt JF, Baranzini SE, Butcher EC, Raine CS, Sobel RA, Han DK, Weissman I, Steinman L.
J Exp Med. 2012 Jul 2;209(7):1325-34.
PMID: 22734047

The genetics of multiple sclerosis: an up-to-date review.
Gourraud PA, Harbo HF, Hauser SL, Baranzini SE.
Immunol Rev. 2012 Jul;248(1):87-103.
PMID: 22725956

Detection of identity by descent using next-generation whole genome sequencing data.
Su SY, Kasberger J, Baranzini S, Byerley W, Liao W, Oksenberg J, Sherr E, Jorgenson E.
BMC Bioinformatics. 2012 Jun 6;13:121.
PMID: 22672699

Genetics of multiple sclerosis: swimming in an ocean of data.
Baranzini SE, Nickles D.
Curr Opin Neurol. 2012 Jun;25(3):239-45.
PMID: 22516854

Data integration and systems biology approaches for biomarker discovery: challenges and opportunities for multiple sclerosis.
Villoslada P, Baranzini S.
J Neuroimmunol. 2012 Jul 15;248(1-2):58-65.
PMID: 22281286

iCTNet: a Cytoscape plugin to produce and analyze integrative complex traits networks.
Wang L, Khankhanian P, Baranzini SE, Mousavi P.
BMC Bioinformatics. 2011 Sep 26;12:380.
PMID: 21943367

Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.
International Multiple Sclerosis Genetics Consortium; Wellcome Trust Case Control Consortium 2, Sawcer S, Hellenthal G, Pirinen M, Spencer CC, Patsopoulos NA, Moutsianas L, Dilthey A, Su Z, Freeman C, Hunt SE, Edkins S, Gray E, Booth DR, Potter SC, Goris A, Band G, Oturai AB, Strange A, Saarela J, Bellenguez C, Fontaine B, Gillman M, Hemmer B, Gwilliam R, Zipp F, Jayakumar A, Martin R, Leslie S, Hawkins S, Giannoulatou E, D'alfonso S, Blackburn H, Martinelli Boneschi F, Liddle J, Harbo HF, Perez ML, Spurkland A, Waller MJ, Mycko MP, Ricketts M, Comabella M, Hammond N, Kockum I, McCann OT, Ban M, Whittaker P, Kemppinen A, Weston P, Hawkins C, Widaa S, Zajicek J, Dronov S, Robertson N, Bumpstead SJ, Barcellos LF, Ravindrarajah R, Abraham R, Alfredsson L, Ardlie K, Aubin C, Baker A, Baker K, Baranzini SE, Bergamaschi L, Bergamaschi R, Bernstein A, Berthele A, Boggild M, Bradfield JP, Brassat D, Broadley SA, Buck D, Butzkueven H, Capra R, Carroll WM, Cavalla P, Celius EG, Cepok S, Chiavacci R, Clerget-Darpoux F, Clysters K, Comi G, Cossburn M, Cournu-Rebeix I, Cox MB, Cozen W, Cree BA, Cross AH, Cusi D, Daly MJ, Davis E, de Bakker PI, Debouverie M, D'hooghe MB, Dixon K, Dobosi R, Dubois B, Ellinghaus D, Elovaara I, Esposito F, Fontenille C, Foote S, Franke A, Galimberti D, Ghezzi A, Glessner J, Gomez R, Gout O, Graham C, Grant SF, Guerini FR, Hakonarson H, Hall P, Hamsten A, Hartung HP, Heard RN, Heath S, Hobart J, Hoshi M, Infante-Duarte C, Ingram G, Ingram W, Islam T, Jagodic M, Kabesch M, Kermode AG, Kilpatrick TJ, Kim C, Klopp N, Koivisto K, Larsson M, Lathrop M, Lechner-Scott JS, Leone MA, Leppä V, Liljedahl U, Bomfim IL, Lincoln RR, Link J, Liu J, Lorentzen AR, Lupoli S, Macciardi F, Mack T, Marriott M, Martinelli V, Mason D, McCauley JL, Mentch F, Mero IL, Mihalova T, Montalban X, Mottershead J, Myhr KM, Naldi P, Ollier W, Page A, Palotie A, Pelletier J, Piccio L, Pickersgill T, Piehl F, Pobywajlo S, Quach HL, Ramsay PP, Reunanen M, Reynolds R, Rioux JD, Rodegher M, Roesner S, Rubio JP, Rückert IM, Salvetti M, Salvi E, Santaniello A, Schaefer CA, Schreiber S, Schulze C, Scott RJ, Sellebjerg F, Selmaj KW, Sexton D, Shen L, Simms-Acuna B, Skidmore S, Sleiman PM, Smestad C, Sørensen PS, Søndergaard HB, Stankovich J, Strange RC, Sulonen AM, Sundqvist E, Syvänen AC, Taddeo F, Taylor B, Blackwell JM, Tienari P, Bramon E, Tourbah A, Brown MA, Tronczynska E, Casas JP, Tubridy N, Corvin A, Vickery J, Jankowski J, Villoslada P, Markus HS, Wang K, Mathew CG, Wason J, Palmer CN, Wichmann HE, Plomin R, Willoughby E, Rautanen A, Winkelmann J, Wittig M, Trembath RC, Yaouanq J, Viswanathan AC, Zhang H, Wood NW, Zuvich R, Deloukas P, Langford C, Duncanson A, Oksenberg JR, Pericak-Vance MA, Haines JL, Olsson T, Hillert J, Ivinson AJ, De Jager PL, Peltonen L, Stewart GJ, Hafler DA, Hauser SL, McVean G, Donnelly P, Compston A.
Nature. 2011 Aug 10;476(7359):214-9.
PMID: 21833088

Axin2 as regulatory and therapeutic target in newborn brain injury and remyelination.
Fancy SP, Harrington EP, Yuen TJ, Silbereis JC, Zhao C, Baranzini SE, Bruce CC, Otero JJ, Huang EJ, Nusse R, Franklin RJ, Rowitch DH.
Nat Neurosci. 2011 Jun 26;14(8):1009-16.
PMID: 21706018

Myelin regeneration: a recapitulation of development?
Fancy SP, Chan JR, Baranzini SE, Franklin RJ, Rowitch DH.
Annu Rev Neurosci. 2011;34:21-43.
PMID: 21692657

Functional energetics of CD4+-cellular immunity in monoclonal antibody-associated progressive multifocal leukoencephalopathy in autoimmune disorders.
Haghikia A, Perrech M, Pula B, Ruhrmann S, Potthoff A, Brockmeyer NH, Goelz S, Wiendl H, Lindå H, Ziemssen T, Baranzini SE, Käll TB, Bengel D, Olsson T, Gold R, Chan A.
PLoS One. 2011 Apr 20;6(4):e18506.
PMID: 21533133

Manitoba-oculo-tricho-anal (MOTA) syndrome is caused by mutations in FREM1.
Slavotinek AM, Baranzini SE, Schanze D, Labelle-Dumais C, Short KM, Chao R, Yahyavi M, Bijlsma EK, Chu C, Musone S, Wheatley A, Kwok PY, Marles S, Fryns JP, Maga AM, Hassan MG, Gould DB, Madireddy L, Li C, Cox TC, Smyth I, Chudley AE, Zenker M.
J Med Genet. 2011 Jun;48(6):375-82.
PMID: 21507892

Revealing the genetic basis of multiple sclerosis: are we there yet?
Baranzini SE.
Curr Opin Genet Dev. 2011 Jun;21(3):317-24.
PMID: 21247752

Modeling the cumulative genetic risk for multiple sclerosis from genome-wide association data.
Wang JH, Pappas D, De Jager PL, Pelletier D, de Bakker PI, Kappos L, Polman CH; Australian and New Zealand Multiple Sclerosis Genetics Consortium (ANZgene), Chibnik LB, Hafler DA, Matthews PM, Hauser SL, Baranzini SE, Oksenberg JR.
Genome Med. 2011 Jan 18;3(1):3.
PMID: 21244703

Dynamic, multi-level network models of clinical trials.
Sorani MD, Manley GT, Claude Hemphill J, Baranzini SE.
Pac Symp Biocomput. 2011:38-49.
PMID: 21121031

Genetic variation in the odorant receptors family 13 and the mhc loci influence mate selection in a multiple sclerosis dataset.
Khankhanian P, Gourraud PA, Caillier SJ, Santaniello A, Hauser SL, Baranzini SE, Oksenberg JR.
BMC Genomics. 2010 Nov 10;11:626.
PMID: 21067613

Genetic variation influences glutamate concentrations in brains of patients with multiple sclerosis.
Baranzini SE, Srinivasan R, Khankhanian P, Okuda DT, Nelson SJ, Matthews PM, Hauser SL, Oksenberg JR, Pelletier D.
Brain. 2010 Sep;133(9):2603-11.
PMID: 20802204

Multiple sclerosis genetics--is the glass half full, or half empty?
Oksenberg JR, Baranzini SE.
Nat Rev Neurol. 2010 Aug;6(8):429-37.
PMID: 20625377

Genome, epigenome and RNA sequences of monozygotic twins discordant for multiple sclerosis.
Baranzini SE, Mudge J, van Velkinburgh JC, Khankhanian P, Khrebtukova I, Miller NA, Zhang L, Farmer AD, Bell CJ, Kim RW, May GD, Woodward JE, Caillier SJ, McElroy JP, Gomez R, Pando MJ, Clendenen LE, Ganusova EE, Schilkey FD, Ramaraj T, Khan OA, Huntley JJ, Luo S, Kwok PY, Wu TD, Schroth GP, Oksenberg JR, Hauser SL, Kingsmore SF.
Nature. 2010 Apr 29;464(7293):1351-6.
PMID: 20428171

The genetics of autoimmune diseases: a networked perspective.
Baranzini SE.
Curr Opin Immunol. 2009 Dec;21(6):596-605.
PMID: 19896815

Differential micro RNA expression in PBMC from multiple sclerosis patients.
Otaegui D, Baranzini SE, Armañanzas R, Calvo B, Muñoz-Culla M, Khankhanian P, Inza I, Lozano JA, Castillo-Triviño T, Asensio A, Olaskoaga J, López de Munain A.
PLoS One. 2009 Jul 20;4(7):e6309.
PMID: 19617918

Longitudinal system-based analysis of transcriptional responses to type I interferons.
Pappas DJ, Coppola G, Gabatto PA, Gao F, Geschwind DH, Oksenberg JR, Baranzini SE.
Physiol Genomics. 2009 Aug 7;38(3):362-71.
PMID: 19531577

Meta-analysis of genome scans and replication identify CD6, IRF8 and TNFRSF1A as new multiple sclerosis susceptibility loci.
De Jager PL, Jia X, Wang J, de Bakker PI, Ottoboni L, Aggarwal NT, Piccio L, Raychaudhuri S, Tran D, Aubin C, Briskin R, Romano S; International MS Genetics Consortium, Baranzini SE, McCauley JL, Pericak-Vance MA, Haines JL, Gibson RA, Naeglin Y, Uitdehaag B, Matthews PM, Kappos L, Polman C, McArdle WL, Strachan DP, Evans D, Cross AH, Daly MJ, Compston A, Sawcer SJ, Weiner HL, Hauser SL, Hafler DA, Oksenberg JR.
Nat Genet. 2009 Jul;41(7):776-82.
PMID: 19525953

Dysregulation of the Wnt pathway inhibits timely myelination and remyelination in the mammalian CNS.
Fancy SP, Baranzini SE, Zhao C, Yuk DI, Irvine KA, Kaing S, Sanai N, Franklin RJ, Rowitch DH.
Genes Dev. 2009 Jul 1;23(13):1571-85.
PMID: 19515974

Pathway and network-based analysis of genome-wide association studies in multiple sclerosis.
Baranzini SE, Galwey NW, Wang J, Khankhanian P, Lindberg R, Pelletier D, Wu W, Uitdehaag BM, Kappos L; GeneMSA Consortium, Polman CH, Matthews PM, Hauser SL, Gibson RA, Oksenberg JR, Barnes MR.
Hum Mol Genet. 2009 Jun 1;18(11):2078-90.
PMID: 19286671

Systems biology and its application to the understanding of neurological diseases.
Villoslada P, Steinman L, Baranzini SE.
Ann Neurol. 2009 Feb;65(2):124-39.
PMID: 19260029

Incidental MRI anomalies suggestive of multiple sclerosis: the radiologically isolated syndrome.
Okuda DT, Mowry EM, Beheshtian A, Waubant E, Baranzini SE, Goodin DS, Hauser SL, Pelletier D.
Neurology. 2009 Mar 3;72(9):800-5. Erratum in: Neurology. 2009 Apr 7;72(14):1284.
PMID: 19073949

Genotype-Phenotype correlations in multiple sclerosis: HLA genes influence disease severity inferred by 1HMR spectroscopy and MRI measures.
Okuda DT, Srinivasan R, Oksenberg JR, Goodin DS, Baranzini SE, Beheshtian A, Waubant E, Zamvil SS, Leppert D, Qualley P, Lincoln R, Gomez R, Caillier S, George M, Wang J, Nelson SJ, Cree BA, Hauser SL, Pelletier D.
Brain. 2009 Jan;132(Pt 1):250-9.
PMID: 19022862

Genome-wide association analysis of susceptibility and clinical phenotype in multiple sclerosis.
Baranzini SE, Wang J, Gibson RA, Galwey N, Naegelin Y, Barkhof F, Radue EW, Lindberg RL, Uitdehaag BM, Johnson MR, Angelakopoulou A, Hall L, Richardson JC, Prinjha RK, Gass A, Geurts JJ, Kragt J, Sombekke M, Vrenken H, Qualley P, Lincoln RR, Gomez R, Caillier SJ, George MF, Mousavi H, Guerrero R, Okuda DT, Cree BA, Green AJ, Waubant E, Goodin DS, Pelletier D, Matthews PM, Hauser SL, Kappos L, Polman CH, Oksenberg JR.
Hum Mol Genet. 2009 Feb 15;18(4):767-78.
PMID: 19010793

Changes in matrix metalloproteinases and their inhibitors during interferon-beta treatment in multiple sclerosis.
Comabella M, Río J, Espejo C, Ruiz de Villa M, Al-Zayat H, Nos C, Deisenhammer F, Baranzini SE, Nonell L, López C, Julià E, Oksenberg JR, Montalban X.
Clin Immunol. 2009 Feb;130(2):145-50.
PMID: 18945642

Uncoupling the roles of HLA-DRB1 and HLA-DRB5 genes in multiple sclerosis.
Caillier SJ, Briggs F, Cree BA, Baranzini SE, Fernandez-Viña M, Ramsay PP, Khan O, Royal W 3rd, Hauser SL, Barcellos LF, Oksenberg JR.
J Immunol. 2008 Oct 15;181(8):5473-80. Erratum in: J Immunol. 2009 Feb 15;182(4):2551.
PMID: 18832704                     

Abrogation of T cell quiescence characterizes patients at high risk for multiple sclerosis after the initial neurological event.
Corvol JC, Pelletier D, Henry RG, Caillier SJ, Wang J, Pappas D, Casazza S, Okuda DT, Hauser SL, Oksenberg JR, Baranzini SE.
Proc Natl Acad Sci U S A. 2008 Aug 19;105(33):11839-44.
PMID: 18689680

The genetics of multiple sclerosis: SNPs to pathways to pathogenesis.
Oksenberg JR, Baranzini SE, Sawcer S, Hauser SL.
Nat Rev Genet. 2008 Jul;9(7):516-26.
PMID: 18542080

Proteomic analysis of active multiple sclerosis lesions reveals therapeutic targets.
Han MH, Hwang SI, Roy DB, Lundgren DH, Price JV, Ousman SS, Fernald GH, Gerlitz B, Robinson WH, Baranzini SE, Grinnell BW, Raine CS, Sobel RA, Han DK, Steinman L.
Nature. 2008 Feb 28;451(7182):1076-81.
PMID: 18278032

Evidence for association of chromosome 10 open reading frame (C10orf27) gene polymorphisms and multiple sclerosis.
Goertsches R, Baranzini SE, Morcillo C, Nos C, Camiña M, Oksenberg JR, Montalban X, Comabella M.
Mult Scler. 2008 Apr;14(3):412-4.
PMID: 18208870

Genome-wide pharmacogenomic analysis of the response to interferon beta therapy in multiple sclerosis.
Byun E, Caillier SJ, Montalban X, Villoslada P, Fernández O, Brassat D, Comabella M, Wang J, Barcellos LF, Baranzini SE, Oksenberg JR.
Arch Neurol. 2008 Mar;65(3):337-44.
PMID: 18195134

A framework and mechanistically focused, in silico method for enabling rational translational research.
Hunt CA, Baranzini S, Matthay MA, Park S.
Summit on Translat Bioinforma. 2008 Mar 1;2008:46-50.
PMID: 21347126

Increased transcriptional activity of milk-related genes following the active phase of experimental autoimmune encephalomyelitis and multiple sclerosis.
Otaegui D, Mostafavi S, Bernard CC, Lopez de Munain A, Mousavi P, Oksenberg JR, Baranzini SE.
J Immunol. 2007 Sep 15;179(6):4074-82.
PMID: 17785846

Quantitative longitudinal analysis of T cell receptor repertoire expression in HIV-infected patients on antiretroviral and interleukin-2 therapy.
Sriram U, Wong M, Caillier SJ, Hecht FM, Elkins MK, Levy JA, Oksenberg JR, Baranzini SE.
AIDS Res Hum Retroviruses. 2007 May;23(5):741-7.
PMID: 17531001

Genome-wide network analysis reveals the global properties of IFN-beta immediate transcriptional effects in humans.
Fernald GH, Knott S, Pachner A, Caillier SJ, Narayan K, Oksenberg JR, Mousavi P, Baranzini SE.
J Immunol. 2007 Apr 15;178(8):5076-85.
PMID: 17404290

The molecular signature of therapeutic mesenchymal stem cells exposes the architecture of the hematopoietic stem cell niche synapse.
Pedemonte E, Benvenuto F, Casazza S, Mancardi G, Oksenberg JR, Uccelli A, Baranzini SE.
BMC Genomics. 2007 Mar 6;8:65.
PMID: 17341312

Peroxisome proliferator-activated receptor (PPAR)alpha expression in T cells mediates gender differences in development of T cell-mediated autoimmunity.
Dunn SE, Ousman SS, Sobel RA, Zuniga L, Baranzini SE, Youssef S, Crowell A, Loh J, Oksenberg J, Steinman L.
J Exp Med. 2007 Feb 19;204(2):321-30.
PMID: 17261635

Systems-based medicine approaches to understand and treat complex diseases. The example of multiple sclerosis.
Baranzini SE.
Autoimmunity. 2006 Dec;39(8):651-62.
PMID: 17178562

Heterogeneity at the HLA-DRB1 locus and risk for multiple sclerosis.
Barcellos LF, Sawcer S, Ramsay PP, Baranzini SE, Thomson G, Briggs F, Cree BC, Begovich AB, Villoslada P, Montalban X, Uccelli A, Savettieri G, Lincoln RR, DeLoa C, Haines JL, Pericak-Vance MA, Compston A, Hauser SL, Oksenberg JR.
Hum Mol Genet. 2006 Sep 15;15(18):2813-24.
PMID: 16905561

Predictive modeling of therapy response in multiple sclerosis using gene expression data.
Mostafavi S, Baranzini S, Oksernberg J, Mousavi P.
Conf Proc IEEE Eng Med Biol Soc. 2006;1:5519-22.
PMID: 17946311

Mapping gene activity in complex disorders: Integration of expression and genomic scans for multiple sclerosis.
Fernald GH, Yeh RF, Hauser SL, Oksenberg JR, Baranzini SE.
J Neuroimmunol. 2005 Oct;167(1-2):157-69.
PMID: 16129498

Modular transcriptional activity characterizes the initiation and progression of autoimmune encephalomyelitis.
Baranzini SE, Bernard CC, Oksenberg JR.
J Immunol. 2005 Jun 1;174(11):7412-22.
PMID: 15905590

Genomics and new targets for multiple sclerosis.
Baranzini SE, Oksenberg JR.
Pharmacogenomics. 2005 Mar;6(2):151-61.
PMID: 15882133

Gene expression profiling in neurological disorders: toward a systems-level understanding of the brain.
Baranzini SE.
Neuromolecular Med. 2004;6(1):31-51.
PMID: 15781975

Transcription-based prediction of response to IFNbeta using supervised computational methods.
Baranzini SE, Mousavi P, Rio J, Caillier SJ, Stillman A, Villoslada P, Wyatt MM, Comabella M, Greller LD, Somogyi R, Montalban X, Oksenberg JR.
PLoS Biol. 2005 Jan;3(1):e2.
PMID: 15630474

Longitudinal analysis of B cell repertoire and antibody gene rearrangements during early HIV infection.
Elkins MK, Vittinghoff E, Baranzini SE, Hecht FM, Sriram U, Busch MP, Levy JA, Oksenberg JR; San Francisco Primary Infection Group.
Genes Immun. 2005 Feb;6(1):66-9.
PMID: 15538390

Mapping multiple sclerosis susceptibility to the HLA-DR locus in African Americans.
Oksenberg JR, Barcellos LF, Cree BA, Baranzini SE, Bugawan TL, Khan O, Lincoln RR, Swerdlin A, Mignot E, Lin L, Goodin D, Erlich HA, Schmidt S, Thomson G, Reich DE, Pericak-Vance MA, Haines JL, Hauser SL.
Am J Hum Genet. 2004 Jan;74(1):160-7.
PMID: 14669136

Dynamic regulation of alternative ATP-binding cassette transporter A1 transcripts.
Huuskonen J, Abedin M, Vishnu M, Pullinger CR, Baranzini SE, Kane JP, Fielding PE, Fielding CJ.
Biochem Biophys Res Commun. 2003 Jun 27;306(2):463-8.
PMID: 12804586

Osteopontin polymorphisms and disease course in multiple sclerosis.
Caillier S, Barcellos LF, Baranzini SE, Swerdlin A, Lincoln RR, Steinman L, Martin E, Haines JL, Pericak-Vance M, Hauser SL, Oksenberg JR; Multiple Sclerosis Genetics Group.
Genes Immun. 2003 Jun;4(4):312-5.
PMID: 12761568

Direct deletion analysis in two Duchenne muscular dystrophy symptomatic females using polymorphic dinucleotide (CA)n loci within the dystrophin gene.
Giliberto F, Ferreiro V, Dalamón V, Surace E, Cotignola J, Esperante S, Borelina D, Baranzini S, Szijan I.
J Biochem Mol Biol. 2003 Mar 31;36(2):179-84.
PMID: 12689516

Pharmacogenomic analysis of interferon receptor polymorphisms in multiple sclerosis.
Sriram U, Barcellos LF, Villoslada P, Rio J, Baranzini SE, Caillier S, Stillman A, Hauser SL, Montalban X, Oksenberg JR.
Genes Immun. 2003 Mar;4(2):147-52.
PMID: 12618863

Large-scale gene-expression studies and the challenge of multiple sclerosis.
Baranzini SE, Hauser SL.
Genome Biol. 2002 Sep 16;3(10):reviews1027.
PMID: 12372148

The HLA locus and multiple sclerosis in Spain. Role in disease susceptibility, clinical course and response to interferon-beta.
Villoslada P, Barcellos LF, Rio J, Begovich AB, Tintore M, Sastre-Garriga J, Baranzini SE, Casquero P, Hauser SL, Montalban X, Oksenberg JR.
J Neuroimmunol. 2002 Sep;130(1-2):194-201.
PMID: 12225902

Gene expression analysis reveals altered brain transcription of glutamate receptors and inflammatory genes in a patient with chronic focal (Rasmussen's) encephalitis.
Baranzini SE, Laxer K, Bollen A, Oksenberg JR.
J Neuroimmunol. 2002 Jul;128(1-2):9-15.
PMID: 12098505

New insights into the genetics of multiple sclerosis.
Baranzini SE, Oksenberg JR, Hauser SL.
J Rehabil Res Dev. 2002 Mar-Apr;39(2):201-9.
PMID: 12051464

Analysis of antibody gene rearrangement, usage, and specificity in chronic focal encephalitis.
Baranzini SE, Laxer K, Saketkhoo R, Elkins MK, Parent JM, Mantegazza R, Oksenberg JR.
Neurology. 2002 Mar 12;58(5):709-16.
PMID: 11889232

The influence of the proinflammatory cytokine, osteopontin, on autoimmune demyelinating disease.
Chabas D, Baranzini SE, Mitchell D, Bernard CC, Rittling SR, Denhardt DT, Sobel RA, Lock C, Karpuj M, Pedotti R, Heller R, Oksenberg JR, Steinman L.
Science. 2001 Nov 23;294(5547):1731-5.
PMID: 11721059

Multiple sclerosis: genomic rewards.
Oksenberg JR, Baranzini SE, Barcellos LF, Hauser SL.
J Neuroimmunol. 2001 Feb 15;113(2):171-84.
PMID: 11164900

Transcriptional analysis of multiple sclerosis brain lesions reveals a complex pattern of cytokine expression.
Baranzini SE, Elfstrom C, Chang SY, Butunoi C, Murray R, Higuchi R, Oksenberg JR.
J Immunol. 2000 Dec 1;165(11):6576-82.
PMID: 11086101

Clinical, cytogenetic, and molecular testing of Argentine patients with retinoblastoma.
Arbetman A, Abdala M, Fandiño A, Herrera J, Baranzini S, Borelina D, Parma D, Manzitti J, Barreiro C, Giliberto F, Szijan I.
J AAPOS. 1998 Apr;2(2):102-7.
PMID: 10530971

B cell repertoire diversity and clonal expansion in multiple sclerosis brain lesions.
Baranzini SE, Jeong MC, Butunoi C, Murray RS, Bernard CC, Oksenberg JR.
J Immunol. 1999 Nov 1;163(9):5133-44.
PMID: 10528220

Carrier detection in Duchenne and Becker muscular dystrophy Argentine families.
Baranzini SE, Giliberto F, Dalamon V, Barreiro C, García-Erro M, Grippo J, Szijan I.
Clin Genet. 1998 Dec;54(6):503-11.
PMID: 9894797

Deletion patterns in Argentine patients with Duchenne and Becker muscular dystrophy.
Baranzini SE, Giliberto F, Herrera M, Bernath V, Barreiro C, Garcia Erro M, Grippo J, Szijan I.
Neurol Res. 1998 Jul;20(5):409-414.
PMID: 9664586

Four new polymorphisms in the human dystrophin gene from an Argentinian population.
Baranzini SE, Lenk U, Szijan I, Speer A.
Muscle Nerve. 1997 Nov;20(11):1451-3.
PMID: 9342163

Patient with an Xp21 contiguous gene deletion syndrome in association with agenesis of the corpus callosum.
Baranzini SE, del Rey G, Nigro N, Szijan I, Chamoles N, Cresto JC.
Am J Med Genet. 1997 Jun 13;70(3):216-21.
PMID: 9188656

A new point mutation (M313T) in the thyroid hormone receptor beta gene in a patient with resistance to thyroid hormone.
di Fulvio M, Chiesa AE, Baranzini SE, Gruñiero-Papendieck L, Masini-Repiso AM, Targovnik HM.
Thyroid. 1997 Feb;7(1):43-4.
PMID: 9086569