SJMack

Steve Mack, PhD
Assistant Scientist
Overview
Research
Publications

 

Email
Phone: 510-597-7145

 

Publications

Chang C-J, Osoegawa K, Milius RP, Maiers M, Xiao W, Fernandez-Viña M, Mack SJ. Collection and Storage of HLA NGS Genotyping Data for the 17th International HLA and Immunogenetics Workshop. Hum Immunol. 2017. In Press.

Weiskopf D, Grifoni A, Arlehamn CSL, Angelo M, Leary S, Sidney J, Frazier A,
Mack SJ, Phillips E, Mallal S, Cerpas C, Balmaseda A, Harris E, Sette A. Sequence-based HLA-A, B, C, DP, DQ, and DR typing of 339 adults from Managua, Nicaragua. Hum Immunol. 2017. In Press.

Mack SJ, Udell J, Cohen F, Osoegawa K, Hawbecker SK, Noonan DA, Ladner MB, Goodridge D, Trachtenberg EA, Oksenberg JR, Erlich HA. High Resolution HLA Analysis Reveals Independent Class I Haplotypes and Amino-Acid Motifs Protective for Multiple Sclerosis. Genes and Immunity. 2017. In Press.

Arlehamn CS, Copin R, Leary S, Mack SJ, Phillips E, Mallal S, Sette A, Blatner G, Siefers H, Ernst JD; TBRU-ASTRa Study Team. Sequence-based HLA-A, B, C, DP, DQ, and DR typing of 100 Luo infants from the Boro area of Nyanza Province, Kenya. Hum Immunol. 2017 Apr;78(4):325-326.

Pappas DJ, Lizee A, Paunic V, Beutner KR, Motyer A,  Vukcevic D, Leslie S, Biesiada J, Meller J, Taylor KD, Zheng X, Zhao LP, Gourraud P-A, Hollenbach JA, Mack SJ, Maiers M. Significant variation between SNP-based HLA imputations in diverse populations: The last mile is the hardest. The Pharmacogenomics Journal. 2017. Advance Online Publication. 25 April 2017.

Mack SJ, Middleton D. Update on short population reports. Hum Immunol. 2016 Aug;77(8):617.

Pappas DJ, Marin W, Hollenbach JA, Mack SJ. Bridging ImmunoGenomic Data Analysis Workflow Gaps (BIGDAWG): An integrated case-control analysis pipeline. Hum Immunol. 2016 Mar;77(3):283-7.

Milius RP, Heuer M, George M, Pollack J, Hollenbach JA, Mack SJ, Maiers M. The GL service: Web service to exchange GL string encoded HLA and KIR genotypes with complete and accurate allele and genotype ambiguity. Hum Immunol. 2016 Mar;77(3):249-56.

Osoegawa K, Mack SJ, Udell J, Noonan DA, Ozanne S, Trachtenberg E, Prestegaard M. HLA Haplotype Validator for quality assessments of HLA typing. Hum Immunol. 2016 Mar;77(3):273-82.

Mack SJ. A gene feature enumeration approach for describing HLA allele polymorphism. Hum Immunol. 2015 Dec;76(12):975-81.

Mack SJ, Milius RP, Gifford BD, Sauter J, Hofmann J, Osoegawa K, Robinson J, Groeneweg M, Turenchalk GS, Adai A, Holcomb C, Rozemuller EH, Penning MT, Heuer ML, Wang C, Salit ML, Schmidt AH, Parham PR, Müller C, Hague T, Fischer G, Fernandez-Viña M, Hollenbach JA, Norman PJ, Maiers M. Minimum information for reporting next generation sequence genotyping (MIRING): Guidelines for reporting HLA and KIR genotyping via next generation sequencing. Hum Immunol. 2015 Dec;76(12):954-62.

Milius RP, Heuer M, Valiga D, Doroschak KJ, Kennedy CJ, Bolon YT, Schneider J, Pollack J, Kim HR, Cereb N, Hollenbach JA, Mack SJ, Maiers M. Histoimmunogenetics Markup Language 1.0: Reporting next generation sequencing-based HLA and KIR genotyping. Hum Immunol. 2015 Dec;76(12):963-74.

Mack SJ, Middleton D. Introducing a new manuscript format: Enabling access to immunogenomic population data with short population reports. Hum Immunol. 2015 Jun;76(6):393-4.

Ollila HM, Ravel JM, Han F, Faraco J, Lin L, Zheng X, Plazzi G, Dauvilliers Y, Pizza F, Hong SC, Jennum P, Knudsen S, Kornum BR, Dong XS, Yan H, Hong H, Coquillard C, Mahlios J, Jolanki O, Einen M, Lavault S, Högl B, Frauscher B, Crowe C, Partinen M, Huang YS, Bourgin P, Vaarala O, Désautels A, Montplaisir J, Mack SJ, Mindrinos M, Fernandez-Vina M, Mignot E. HLA-DPB1 and HLA class I confer risk of and protection from narcolepsy. Am J Hum Genet. 2015 Jan 8;96(1):136-46.

Pino-Yanes, M, Gignoux, CR, Galanter, JM, Levin, AM, Campbell, CD, Eng, C, Huntsman, S, Nishimura, KK, Gourraud, P, Mohajeri, K, O'Roak, BJ, Hu, D, Mathias, RA, Nguyen, EA, Roth, LA, Padhukasahasram, B, Moreno-Estrada, A, Sandoval, K, Winkler, CA, Lurmann, F, Davis, A, Farber, HJ, Meade, K, Avila, PC, Serebrisky, D, Chapela, R, Ford, JG, Lenoir, MA, Thyne, SM, Brigino-Buenaventura, E, Borrell, LN, Rodriguez-Cintron, W, Sen, S, Kumar, R, Rodriguez-Santana, JR, Bustamante, CD, Martinez, FD, Raby, BA, Weiss, ST, Nicolae, DL, Ober, C, Meyers, DA, Bleecker, ER, Mack, SJ, Hernandez, RD, Eichler, EE, Barnes, KC, Williams, LK, Torgerson, DG, Burchard, EG. Genome-wide Association Study and Admixture Mapping Reveal New Loci Associated with Total IgE Levels in Latinos. J Allergy Clin Immunol. 2014 Dec 6. pii: S0091-6749(14)01575-9.

Milius RP, Mack SJ, Hollenbach JA, Pollack J, Heuer M, Gragert L, Spellman S., Guethlein LA, Trachtenberg EA, Cooley S, Bochtler W, Mueller C, Robinson J, Marsh SGE, Maiers M. Genotype List String: a grammar for describing HLA and KIR genotyping results in a text string. Tissue Antigens. 2013. 82(2):106-12.

Mack SJ, Cano P, Hollenbach JA, He J, Hurley CK, Middleton D, Moraes ME, Pereira SE, Kempenich JH, Reed EF, Setterholm M, Smith AG, Tilanus MG, Torres M, Varney MD, Voorter CE, Fischer GF, Fleischhauer K, Goodridge D, Klitz W, Little AM, Maiers M, Marsh SG, Müller CR, Noreen H, Rozemuller EH, Sanchez-Mazas A, Senitzer D, Trachtenberg E, Fernandez-Vina M. Common and well-documented HLA alleles: 2012 update to the CWD catalogue. Tissue Antigens. 2013 Apr;81(4):194-203.

Hollenbach JA, Holcomb C, Hurley CK, Mabdouly A, Maiers M, Noble JA, Robinson J, Schmidt AH, Shi L, Turner V, Yao Y, Mack SJ. 16(th) IHIW: immunogenomic data-management methods. report from the immunogenomic data analysis working group (IDAWG). Int J Immunogenet. 2013 Feb;40(1):46-53.

Gonzalez-Galarza FF, Mack SJ, Hollenbach J, Fernandez-Viña M, Setterholm M, Kempenich J, Marsh SG, Jones AR, Middleton D; HLA Rare Allele Consortium. 16(th) IHIW: extending the number of resources and bioinformatics analysis for the investigation of HLA rare alleles. Int J Immunogenet. 2013 Feb;40(1):60-5.

Bronson PG, Mack SJ, Erlich HA, Slatkin M. A sequence-based approach demonstrates that balancing selection in classical human leukocyte antigen (HLA) loci is asymmetric. Hum Mol Genet. 2013 22(2):252-6.

Hollenbach JA, Mack SJ, Thomson G, Gourraud PA. Analytical methods for disease association studies with immunogenetic data. Methods Mol Biol. 2012;882:245-66.

Mack SJ, Gourraud PA, Single RM, Thomson G, Hollenbach JA. Analytical methods for immunogenetic population data. Methods Mol Biol. 2012;882:215-44.

Gourraud PA, Hollenbach JA, Barnetche T, Single RM, Mack SJ. Standard methods for the management of immunogenetic data. Methods Mol Biol. 2012;882:197-213.

Cano P, Mack SJ, Fernández-Viña M. The CWD allele catalog in China. Hum Immunol. 2012. 73(1):60.

Hollenbach JA, Mack SJ, Gourraud PA, Single RM, Maiers M, Middleton D, Thomson G, Marsh SG, Varney MD; for the Immunogenomics Data Analysis Working Group. A community standard for immunogenomic data reporting and analysis: proposal for a STrengthening the REporting of Immunogenomic Studies statement. Tissue Antigens. 2011 Nov;78(5):333-344.

Sanchez-Mazas A, Fernandez-Viña M, Middleton D, Hollenbach JA, Buhler S, Di D, Rajalingam R, Dugoujon JM, Mack SJ, Thorsby E. Immunogenetics as a tool in anthropological studies. Immunology. 2011. 133(2):143-64.

Mack SJ, Tu B, Yang R, Masaberg C, Ng J, Hurley CK. Human leukocyte antigen-A, -B, -C, -DRB1 allele and haplotype frequencies in Americans originating from southern Europe: contrasting patterns of population differentiation between Italian and Spanish Americans. Hum Immunol. 2011 Feb;72(2):144-9.

Mack SJ, Hollenbach JA. Allele Name Translation Tool and Update NomenCLature:  software tools for the automated translation of HLA allele names between successive nomenclatures. Tissue Antigens. 2010 May;75(5):457-61.

Thomson G, Marthandan N, Hollenbach JA, Mack SJ, Erlich HA, Single RM, Waller  MJ, Marsh SG, Guidry PA, Karp DR, Scheuermann RH, Thompson SD, Glass DN, Helmberg W. Sequence feature variant type (sfvt) analysis of the hla genetic association in juvenile idiopathic arthritis. Pac Symp Biocomput. 2010:359-70.

Erlich HA, Lohman K, Mack SJ, Valdes AM, Julier C, Mirel D, Noble JA, Morahan GE, Rich SS; Type I Diabetes Genetics Consortium. Association analysis of SNPs in the IL4R locus with type I diabetes. Genes Immun. 2009 Dec;10 Suppl 1:S33-41.

Thomson G, Marthandan N, Hollenbach JA, Mack SJ, Erlich HA, Single RM, Waller MJ, Marsh SG, Guidry PA, Karp DR, Scheuermann RH, Thompson SD, Glass DN, Helmberg W. Sequence feature variant type (sfvt) analysis of the hla genetic association in juvenile idiopathic arthritis. Pac Symp Biocomput. 2010:359-70.

Mack SJ, Tu B, Lazaro A, Yang R, Lancaster AK, Cao K, Ng J, Hurley CK. HLA-A,  -B, -C, and -DRB1 allele and haplotype frequencies distinguish Eastern European Americans from the general European American population. Tissue Antigens. 2009 Jan;73(1):17-32.

Johansson A, Ingman M, Mack SJ, Erlich H, Gyllensten U.  Genetic origin of the Swedish Sami inferred from HLA class I and class II allele frequencies. Eur J Hum Genet. 2008 Nov;16(11):1341-9.

Solberg OD, Mack SJ, Lancaster AK, Single RM, Tsai Y, Sanchez-Mazas A, Thomson G. Balancing selection and heterogeneity across the classical human leukocyte antigen loci: a meta-analytic review of 497 population studies. Hum Immunol. 2008 Jul;69(7):443-64.

 

 

Revised: December 12, 2017 10:03 AM

 

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