Enhancer histone-QTLs are enriched on autoimmune risk haplotypes and influence gene expression within chromatin networks
Pelikan, Richard C, Kelly, Jennifer A, Fu, Yao, Lareau, Caleb A, Tessneer, Kandice L, Wiley, Graham B, Wiley, Mandi M, Glenn, Stuart B, Harley, John B, Guthridge, Joel M, James, Judith A, Aryee, Martin J, Montgomery, Courtney, Gaffney, Patrick M
Published in Nature communications (25.07.2018)
Published in Nature communications (25.07.2018)
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Identification of unique microRNA signature associated with lupus nephritis
Te, Jeannie L, Dozmorov, Igor M, Guthridge, Joel M, Nguyen, Kim L, Cavett, Joshua W, Kelly, Jennifer A, Bruner, Gail R, Harley, John B, Ojwang, Joshua O
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Published in PloS one (11.05.2010)
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Identification of a Systemic Lupus Erythematosus Risk Locus Spanning ATG16L2, FCHSD2, and P2RY2 in Koreans
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Published in Arthritis & rheumatology (Hoboken, N.J.) (01.05.2016)
Published in Arthritis & rheumatology (Hoboken, N.J.) (01.05.2016)
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Regulatory polymorphisms modulate the expression of HLA class II molecules and promote autoimmunity
Raj, Prithvi, Rai, Ekta, Song, Ran, Khan, Shaheen, Wakeland, Benjamin E, Viswanathan, Kasthuribai, Arana, Carlos, Liang, Chaoying, Zhang, Bo, Dozmorov, Igor, Carr-Johnson, Ferdicia, Mitrovic, Mitja, Wiley, Graham B, Kelly, Jennifer A, Lauwerys, Bernard R, Olsen, Nancy J, Cotsapas, Chris, Garcia, Christine K, Wise, Carol A, Harley, John B, Nath, Swapan K, James, Judith A, Jacob, Chaim O, Tsao, Betty P, Pasare, Chandrashekhar, Karp, David R, Li, Quan Zhen, Gaffney, Patrick M, Wakeland, Edward K
Published in eLife (15.02.2016)
Published in eLife (15.02.2016)
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A comprehensive analysis of shared loci between systemic lupus erythematosus (SLE) and sixteen autoimmune diseases reveals limited genetic overlap
Ramos, Paula S, Criswell, Lindsey A, Moser, Kathy L, Comeau, Mary E, Williams, Adrienne H, Pajewski, Nicholas M, Chung, Sharon A, Graham, Robert R, Zidovetzki, Raphael, Kelly, Jennifer A, Kaufman, Kenneth M, Jacob, Chaim O, Vyse, Timothy J, Tsao, Betty P, Kimberly, Robert P, Gaffney, Patrick M, Alarcón-Riquelme, Marta E, Harley, John B, Langefeld, Carl D
Published in PLoS genetics (01.12.2011)
Published in PLoS genetics (01.12.2011)
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Systemic lupus erythematosus variants modulate the function of an enhancer upstream of TNFAIP3
Pasula, Satish, Gopalakrishnan, Jaanam, Fu, Yao, Tessneer, Kandice L, Wiley, Mandi M, Pelikan, Richard C, Kelly, Jennifer A, Gaffney, Patrick M
Published in Frontiers in genetics (19.09.2022)
Published in Frontiers in genetics (19.09.2022)
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Genome-wide association study of African and European Americans implicates multiple shared and ethnic specific loci in sarcoidosis susceptibility
Adrianto, Indra, Lin, Chee Paul, Hale, Jessica J, Levin, Albert M, Datta, Indrani, Parker, Ryan, Adler, Adam, Kelly, Jennifer A, Kaufman, Kenneth M, Lessard, Christopher J, Moser, Kathy L, Kimberly, Robert P, Harley, John B, Iannuzzi, Michael C, Rybicki, Benjamin A, Montgomery, Courtney G
Published in PloS one (27.08.2012)
Published in PloS one (27.08.2012)
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Deep sequencing reveals a DAP1 regulatory haplotype that potentiates autoimmunity in systemic lupus erythematosus
Raj, Prithvi, Song, Ran, Zhu, Honglin, Riediger, Linley, Jun, Dong-Jae, Liang, Chaoying, Arana, Carlos, Zhang, Bo, Gao, Yajing, Wakeland, Benjamin E, Dozmorov, Igor, Zhou, Jinchun, Kelly, Jennifer A, Lauwerys, Bernard R, Guthridge, Joel M, Olsen, Nancy J, Nath, Swapan K, Pasare, Chandrashekhar, van Oers, Nicolai, Gilkeson, Gary, Tsao, Betty P, Gaffney, Patrick M, Gregersen, Peter K, James, Judith A, Zuo, Xiaoxia, Karp, David R, Li, Quan-Zhen, Wakeland, Edward K
Published in Genome Biology (19.11.2020)
Published in Genome Biology (19.11.2020)
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Relationship Between a Vitamin D Genetic Risk Score and Autoantibodies Among First-Degree Relatives of Probands With Rheumatoid Arthritis and Systemic Lupus Erythematosus
Vanderlinden, Lauren A., Bemis, Elizabeth A., Seifert, Jennifer, Guthridge, Joel M., Young, Kendra A., Demoruelle, Mary Kristen, Feser, Marie, DeJager, Wade, Macwana, Susan, Mikuls, Ted R., O’Dell, James R., Weisman, Michael H., Buckner, Jane, Keating, Richard M., Gaffney, Patrick M., Kelly, Jennifer A., Langefeld, Carl D., Deane, Kevin D., James, Judith A., Holers, Vernon Michael, Norris, Jill M.
Published in Frontiers in immunology (03.06.2022)
Published in Frontiers in immunology (03.06.2022)
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Massively parallel reporter assay confirms regulatory potential of hQTLs and reveals important variants in lupus and other autoimmune diseases
Fu, Yao, Kelly, Jennifer A., Gopalakrishnan, Jaanam, Pelikan, Richard C., Tessneer, Kandice L., Pasula, Satish, Grundahl, Kiely, Murphy, David A., Gaffney, Patrick M.
Published in HGG advances (11.04.2024)
Published in HGG advances (11.04.2024)
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Association of IFIH1 and pro-inflammatory mediators: Potential new clues in SLE-associated pathogenesis
Munroe, Melissa E, Pezant, Nathan, Brown, Michael A, Fife, Dustin A, Guthridge, Joel M, Kelly, Jennifer A, Wiley, Graham, Gaffney, Patrick M, James, Judith A, Montgomery, Courtney G
Published in PloS one (24.02.2017)
Published in PloS one (24.02.2017)
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Common variants within MECP2 confer risk of systemic lupus erythematosus
Sawalha, Amr H, Webb, Ryan, Han, Shizhong, Kelly, Jennifer A, Kaufman, Kenneth M, Kimberly, Robert P, Alarcón-Riquelme, Marta E, James, Judith A, Vyse, Timothy J, Gilkeson, Gary S, Choi, Chan-Bum, Scofield, R Hal, Bae, Sang-Cheol, Nath, Swapan K, Harley, John B
Published in PloS one (05.03.2008)
Published in PloS one (05.03.2008)
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Identification of a New Susceptibility Locus for Systemic Lupus Erythematosus on Chromosome 12 in Individuals of European Ancestry
Demirci, F. Yesim, Wang, Xingbin, Kelly, Jennifer A., Morris, David L., Barmada, M. Michael, Feingold, Eleanor, Kao, Amy H., Sivils, Kathy L., Bernatsky, Sasha, Pineau, Christian, Clarke, Ann E., Ramsey‐Goldman, Rosalind, Vyse, Timothy J., Gaffney, Patrick M., Manzi, Susan, Kamboh, M. Ilyas
Published in Arthritis & rheumatology (Hoboken, N.J.) (01.01.2016)
Published in Arthritis & rheumatology (Hoboken, N.J.) (01.01.2016)
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The genomics of autoimmune disease in the era of genome-wide association studies and beyond
Lessard, Christopher J, Ice, John A, Adrianto, Indra, Wiley, Graham B, Kelly, Jennifer A, Gaffney, Patrick M, Montgomery, Courtney G, Moser, Kathy L
Published in Autoimmunity reviews (01.02.2012)
Published in Autoimmunity reviews (01.02.2012)
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High-density SNP screening of the major histocompatibility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions
Barcellos, Lisa F, May, Suzanne L, Ramsay, Patricia P, Quach, Hong L, Lane, Julie A, Nititham, Joanne, Noble, Janelle A, Taylor, Kimberly E, Quach, Diana L, Chung, Sharon A, Kelly, Jennifer A, Moser, Kathy L, Behrens, Timothy W, Seldin, Michael F, Thomson, Glenys, Harley, John B, Gaffney, Patrick M, Criswell, Lindsey A
Published in PLoS genetics (01.10.2009)
Published in PLoS genetics (01.10.2009)
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Nucleic Acid-Sensing and Interferon-Inducible Pathways Show Differential Methylation in MZ Twins Discordant for Lupus and Overexpression in Independent Lupus Samples: Implications for Pathogenic Mechanism and Drug Targeting
Marion, Miranda C, Ramos, Paula S, Bachali, Prathyusha, Labonte, Adam C, Zimmerman, Kip D, Ainsworth, Hannah C, Heuer, Sarah E, Robl, Robert D, Catalina, Michelle D, Kelly, Jennifer A, Howard, Timothy D, Lipsky, Peter E, Grammer, Amrie C, Langefeld, Carl D
Published in Genes (26.11.2021)
Published in Genes (26.11.2021)
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Evidence for gene-gene epistatic interactions among susceptibility loci for systemic lupus erythematosus
Hughes, Travis, Adler, Adam, Kelly, Jennifer A., Kaufman, Kenneth M., Williams, Adrienne H., Langefeld, Carl D., Brown, Elizabeth E., Alarcón, Graciela S., Kimberly, Robert P., Edberg, Jeffrey C., Ramsey-Goldman, Rosalind, Petri, Michelle, Boackle, Susan A., Stevens, Anne M., Reveille, John D., Sanchez, Elena, Martín, Javier, Niewold, Timothy B., Vilá, Luis M., Scofield, R. Hal, Gilkeson, Gary S., Gaffney, Patrick M., Criswell, Lindsey A., Moser, Kathy L., Merrill, Joan T., Jacob, Chaim O., Tsao, Betty P., James, Judith A., Vyse, Timothy J., Alarcón-Riquelme, Marta E., Harley, John B., Richardson, Bruce C., Sawalha, Amr H.
Published in Arthritis & rheumatology (Hoboken, N.J.) (01.02.2012)
Published in Arthritis & rheumatology (Hoboken, N.J.) (01.02.2012)
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Dysregulated long non-coding RNA in Sjögren’s disease impacts both interferon and adaptive immune responses
Joachims, Michelle L, Khatri, Bhuwan, Li, Chuang, Tessneer, Kandice L, Ice, John A, Stolarczyk, Anna M, Means, Nicolas, Grundahl, Kiely M, Glenn, Stuart B, Kelly, Jennifer A, Lewis, David M, Radfar, Lida, Stone, Donald U, Guthridge, Joel M, James, Judith A, Scofield, R Hal, Wiley, Graham B, Wren, Jonathan D, Gaffney, Patrick M, Montgomery, Courtney G, Sivils, Kathy L, Rasmussen, Astrid, Farris, A Darise, Adrianto, Indra, Lessard, Christopher J
Published in Rheumatic & musculoskeletal diseases open (01.11.2022)
Published in Rheumatic & musculoskeletal diseases open (01.11.2022)
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Taming the HLA for single-cell genomics
Kelly, Jennifer A, Tessneer, Kandice L, Gaffney, Patrick M
Published in Nature genetics (01.12.2023)
Published in Nature genetics (01.12.2023)
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