Biomedical Informatics
Roskin Lab

Roskin Research Lab

New technologies have greatly extended the amount of immunological data that can be collected from human samples. Sequencing has become massively parallelized and is being applied to immune receptors, as well as gene expression and genomic variation. The richness of the data will lead to a deeper understanding of immunology at a systems level.

Affiliated with the Divisions of Biomedical Informatics and Immunobiology, the Roskin Lab combines computational, bioinformatic, and molecular biology methods to study the adaptive immune system. Our goal is to integrate this abundance of data to better understand human disease, specifically studying changes in the immune receptor repertoire in the context of antigen exposure or immune disease.

Join the Lab

The Roskin lab is recruiting lab members for postdoctoral, graduate and undergraduate positions. Learn more about joining our team.

Publications

Pham, TD; Chng, MH Y; Roskin, KM; Jackson, KJ L; Nguyen, KD; Glanville, J; Lee, J; Engleman, EG; Boyd, SD. High-fat diet induces systemic B-cell repertoire changes associated with insulin resistance. Mucosal Immunology. 2017; 10:1468-1479.

Ellebedy, AH; Jackson, KJ L; Kissick, HT; Nakaya, HI; Davis, CW; Roskin, KM; McElroy, AK; Oshansky, CM; Elbein, R; Thomas, S; et al. Defining antigen-specific plasmablast and memory B cell subsets in human blood after viral infection or vaccination. Nature Immunology. 2016; 17:1226-1234.

Hoh, RA; Joshi, SA; Liu, Y; Wang, C; Roskin, KM; Lee, J; Pham, T; Looney, TJ; Jackson, KJ L; Dixit, VP; et al. Single B-cell deconvolution of peanut-specific antibody responses in allergic patients. Journal of Allergy and Clinical Immunology. 2016; 137:157-167.

Collins, AM; Wang, Y; Roskin, KM; Marquis, CP; Jackson, KJ L. The mouse antibody heavy chain repertoire is germline-focused and highly variable between inbred strains. Philosophical Transactions of the Royal Society of London: Biological Sciences. 2015; 370:20140236.

Roskin, KM; Simchoni, N; Liu, Y; Lee, J; Seo, K; Hoh, RA; Pham, T; Park, JH; Furman, D; Dekker, CL; et al. IgH sequences in common variable immune deficiency reveal altered B cell development and selection. Science Translational Medicine. 2015; 7:302ra135.

Wang, C; Liu, Y; Cavanagh, MM; Le Saux, S; Qi, Q; Roskin, KM; Looney, TJ; Lee, J; Dixit, V; Dekker, CL; et al. B-cell repertoire responses to varicella-zoster vaccination in human identical twins. Proceedings of the National Academy of Sciences of USA. 2015; 112:500-505.

Jackson, KJ L; Liu, Y; Roskin, KM; Glanville, J; Hoh, RA; Seo, K; Marshall, EL; Gurley, TC; Moody, MA; Haynes, BF; et al. Human responses to influenza vaccination show seroconversion signatures and convergent antibody rearrangements. Cell Host and Microbe. 2014; 16:105-114.

Wang, C; Liu, Y; Xu, LT; Jackson, KJ L; Roskin, KM; Pham, TD; Laserson, J; Marshall, EL; Seo, K; Lee, J; et al. Effects of aging, cytomegalovirus infection, and EBV infection on human B cell repertoires. Journal of immunology (Baltimore, Md. : 1950). 2014; 192:603-611.

Parameswaran, P; Liu, Y; Roskin, KM; Jackson, KK L; Dixit, VP; Lee, J; Artiles, KL; Zompi, S; Jose Vargas, M; Simen, BB; et al. Convergent antibody signatures in human dengue. Cell Host and Microbe. 2013; 13:691-700.

Liao, H; Lynch, R; Zhou, T; Gao, F; Alam, SM; Boyd, SD; Fire, AZ; Roskin, KM; Schramm, CA; Zhang, Z; et al. Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus. Nature. 2013; 496:469-476.

Garrett, MC; Albano, R; Carnwath, T; Elahi, L; Behrmann, CA; Pemberton, M; Woo, D; O’Brien, E; VanCauwenbergh, B; Perentesis, J; et al. HDAC1 and HDAC6 are essential for driving growth in IDH1 mutant glioma. Scientific Reports. 2023; 13:12433.

Dexheimer, PJ; Pujato, M; Roskin, KM; Weirauch, MT. VExD: a curated resource for human gene expression alterations following viral infection. Editor, McIntyre L. G3-Genes Genomes Genetics. 2023; 13:jkad176.

Shi, T; Burg, AR; Caldwell, JT; Roskin, KM; Castro-Rojas, CM; Chukwuma, PC; Gray, GI; Foote, SG; Alonso, JA; Cuda, CM; et al. Single-cell transcriptomic analysis of renal allograft rejection reveals insights into intragraft TCR clonality. The Journal of Clinical Investigation. 2023; 133:e170191.

Rossi, AP; Tremblay, S; Castro-Rojas, CM; Burg, AA; Roskin, KM; Gehman, JM; Rike-Shields, A; Alloway, RR; Brailey, P; Allman, D; et al. Effects of invivo CXCR4 blockade and proteasome inhibition on bone marrow plasma cells in HLA-sensitized kidney transplant candidates. American Journal of Transplantation. 2023; 23:759-775.

Gill, K; Moore, C; Nwogu, O; Kroner, JW; Chang, W; Stevens, ML; Kyzy, AB; Biagini, JM; Devonshire, AL; Kottyan, L; et al. B cell repertoire in children with skin barrier dysfunction supports altered IgE maturation associated with allergic food sensitization. 2023; 4:2023.02.01.526538.

Garrett, MC; Albano, R; Carnwath, T; Shah, S; Woo, D; Lamba, M; Plas, DR; Paranjpe, A; Roskin, K; Zhao, C; et al. Chromatin structure predicts survival in glioma patients. Scientific Reports. 2022; 12:8221.

Williams, JG; Joshi, R; Haslam, D; Yehya, N; Jones, RL; Paranjpe, A; Pujato, M; Roskin, KM; Lahni, PM; Wong, HR; et al. Multi-omic characterization of pediatric ARDS via nasal brushings. Respiratory Research. 2022; 23:181.

McDaniel, MM; Chawla, AS; Jain, A; Meibers, HE; Saha, I; Gao, Y; Jain, V; Roskin, K; Way, SS; Pasare, C. Effector memory CD4+ T cells induce damaging innate inflammation and autoimmune pathology by engaging CD40 and TNFR on myeloid cells. Science Immunology. 2022; 7:eabk0182.

Shi, T; Roskin, K; Baker, BM; Woodle, ES; Hildeman, D. Advanced Genomics-Based Approaches for Defining Allograft Rejection With Single Cell Resolution. Frontiers in Immunology. 2021; 12:750754.

Chen, JA; Hou, Y; Roskin, KM; Arber, DA; Bangs, CD; Baughn, LB; Cherry, AM; Ewalt, MD; Fire, AZ; Fresard, L; et al. Lymphoid blast transformation in an MPN with BCR-JAK2 treated with ruxolitinib: putative mechanisms of resistance. Blood Advances. 2021; 5:3492-3496.

Yang, F; Nielsen, SC A; Hoh, RA; Röltgen, K; Wirz, OF; Haraguchi, E; Jean, GH; Lee, JY; Pham, TD; Jackson, KJ L; et al. Shared B cell memory to coronaviruses and other pathogens varies in human age groups and tissues. Science. 2021; 372:738-741.

Wagar, LE; Salahudeen, A; Constantz, CM; Wendel, BS; Lyons, MM; Mallajosyula, V; Jatt, LP; Adamska, JZ; Blum, LK; Gupta, N; et al. Modeling human adaptive immune responses with tonsil organoids. Nature Medicine. 2021; 27:125-135.

Rai, MA; Hammonds, J; Pujato, M; Mayhew, C; Roskin, K; Spearman, P. Comparative analysis of human microglial models for studies of HIV replication and pathogenesis. Retrovirology. 2020; 17:35.

Woodle, ES; Tremblay, S; Rossi, A; Rojas, CC; Alloway, R; Roskin, K; Allman, D; Hildeman, D. Plasma cell targeting to prevent antibody-mediated rejection. American Journal of Transplantation. 2020; 20 Suppl 4:33-41.

Moore, C; Gao, B; Roskin, KM; Vasilescu, EM; Addonizio, L; Givertz, MM; Madsen, JC; Zorn, E. B cell clonal expansion within immune infiltrates in human cardiac allograft vasculopathy. American Journal of Transplantation. 2020; 20:1431-1438.

Roskin, K; Spearman, P. HIV-1 Broadly Neutralizing Antibodies Take the Road Less Traveled, and That Makes All the Difference. Cell Host and Microbe. 2020; 27:487-488.

Hoh, RA; Joshi, SA; Lee, J; Martin, BA; Varma, S; Kwok, S; Nielsen, SC A; Nejad, P; Haraguchi, E; Dixit, PS; et al. Origins and clonal convergence of gastrointestinal IgE+ B cells in human peanut allergy. Science Immunology. 2020; 5:eaay4209.

Roskin, KM; Jackson, KJ L; Lee, J; Hoh, RA; Joshi, SA; Hwang, K; Bonsignori, M; Pedroza-Pacheco, I; Liao, H; Moody, MA; et al. Aberrant B cell repertoire selection associated with HIV neutralizing antibody breadth. Nature Immunology. 2020; 21:199-209.

Nielsen, SC A; Roskin, KM; Jackson, KJ L; Joshi, SA; Nejad, P; Lee, J; Wagar, LE; Pham, TD; Hoh, RA; Nguyen, KD; et al. Shaping of infant B cell receptor repertoires by environmental factors and infectious disease. Science Translational Medicine. 2019; 11:eaat2004.

Science Blog

Scientists Discover a Peanut Allergy ‘Fingerprint’ That May Help Push Emerging Treatment to New Levels
Asthma and Allergy

Scientists Discover a Peanut Allergy ‘Fingerprint’ That May Help Push Emerging Treatment to New Levels

Krishna M. Roskin, PhD3/9/2020

Broad Immune Response to HIV Linked to Development of B Cells
Big Data and Analytics

Broad Immune Response to HIV Linked to Development of B Cells

Krishna M. Roskin, PhD1/22/2020

Contact Us

A photo of Krishna Roskin.
Krishna M. Roskin, PhD
Assistant Professor
Krishna.Roskin@cchmc.org
513-803-2902
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