ImmPort system related publications and other related resources

ImmPort system related publications

Systems immunology reveals markers of susceptibility to West Nile virus infection. Qian F, Goel G, Meng H, Wang X, You F, Devine L, Raddasi K, Garcia MN, Murray KO, Bolen CR, Gaujoux R, Shen-Orr SS, Hafler D, Fikrig E, Xavier R, Kleinstein SH, Montgomery RR Clin Vaccine Immunol. 2014 Oct 29. pii: CVI.00508-14.

Coordinated Regulation of NK Receptor Expression in the Maturing Human Immune System. Strauss-Albee DM, Horowitz A, Parham P, Blish CA. 2014. J Immunol. 2014 Oct 6. pii: 1401821

ImmPort: disseminating data to the public for the future of immunology. Bhattacharya S, Andorf S, Gomes L, Dunn P, Schaefer H, Pontius J, Berger P, Desborough V, Smith T, Campbell J, Thomson E, Monteiro R, Guimaraes P, Walters B, Wiser J, Butte AJ.

Selected Flow Cytometry Analysis with FLOCK and Cross Sample References

High-Resolution Temporal Response Patterns to Influenza Vaccine Reveal a Distinct Human Plasma Cell Gene Signature. Henn AD, Wu S, Qiu X, Ruda M, Stover M, Yang H, Liu Z, Welle SL, Holden-Wiltse J, Wu H & Zand MS 2013. Sci. Rep 3(2327) doi:10.1038/srep02327

Identification of Novel Changes in CD5+ Lymphocytes in ANCA-Associated Vasculitis Rituximab-Responders Using FLOCK Analysis of the RAVE Trial Flow Cytometry Data. Nasrallah M, Pouliot Y, Hartmann B, Butte AJ. Stanford University School of Medicine.

Unexpected heterogeneity of multifunctional T cells in response to superantigen stimulation in humans. McArthur MA, Sztein MB. Clin Immunol. 2013 Feb;146(2):140-52. doi: 10.1016/j.clim.2012.12.003. Epub 2012 Dec 20.

The Polyfunctionality of Human Memory CD8+ T Cells Elicited by Acute and Chronic Virus Infections Is Not Influenced by Age Lelic A, Verschoor CP, Ventresca M, Parsons R, Evelegh C, et al. 2012. PLoS Pathogen 8(12): e1003076. doi:10.1371/journal.ppat.1003076

Heterogeneity of Multifunctional IL-17A Producing S. Typhi-Specific CD8+ T Cells in Volunteers following Ty21a Typhoid Immunization McArthur MA, Sztein MB. 2012.PLoS ONE 7(6):e38408.doi:10.1371/journal.pone.0038408

Advances in human B cell phenotypic profiling Kaminski DA, Chungwen W, Qian Y, Rosenberg AF, Sanz I. 2012. Front. Immunol.3:302. doi: 10.3389/fimmu.2012.00302

FCSTrans: An open source software system for FCS file conversion and data transformation Qian Y, Liu Y, Campbell J, Thomson E, Kong YM, Scheuermann RH. 2012. Cytometry Part A. 81A(5)

Elucidation of seventeen human peripheral blood B-cell subsets and quantification of the tetanus response using a density-based method for the automated identification of cell populations in multidimensional flow cytometry data Qian Y, Wei C, Eun-Hyung Lee F, Campbell J, Halliley J, Lee JA, Cai J, Kong YM, Sadat E, Thomson E, Dunn P, Seegmiller AC, Karandikar NJ, Tipton CM, Mosmann T, Sanz I, Scheuermann RH. Cytometry B Clin Cytom. 2010;78 Suppl 1:S69-82.

FuGEFlow: data model and markup language for flow cytometry Qian Y, Tchuvatkina O, Spidlen J, Wilkinson P, Gasparetto M, Jones AR, Manion FJ, Scheuermann RH, Sekaly RP, Brinkman RR. BMC Bioinformatics. 2009 Jun 16;10:184.

Ambiguity Reduction

P105: Allele-, Haplotype-, and Genotype-level Associations with Crohn's Disease in Jewish and Non-Jewish European Americans. Mack SJ, Fear AL, Cohen F, Eaton KA, Hawbecker SK, Goodridge FR, Pappas D, Hollenbach JA, McGovern DPB, Rotter JI, Taylor KD, Trachtenberg EA, Erlich HA. The American Society of Histocompatibility and Immunogenetics 40th Annual Meeting. October 20-24, 2014, Denver, Colorado.

Sequence Feature Variant Type Project

Description of the novel sequence feature variant type (SFVT) approach to HLA genetic association analysis and its application in a case/control study of systemic sclerosis appears in Novel sequence feature variant type analysis of the HLA genetic association in systemic sclerosis. Karp et al (2010) Human Molecular Genetics 19(4):707-719. Related supplementary tables are available here for download.

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