GenomicSuperSignature facilitates interpretation of RNA-seq experiments through robust, efficient comparison to public databases
Oh, Sehyun, Geistlinger, Ludwig, Ramos, Marcel, Blankenberg, Daniel, van den Beek, Marius, Taroni, Jaclyn N, Carey, Vincent J, Greene, Casey S, Waldron, Levi, Davis, Sean
Published in Nature communications (27.06.2022)
Published in Nature communications (27.06.2022)
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Journal Article
Mycophenolate Mofetil Treatment of Systemic Sclerosis Reduces Myeloid Cell Numbers and Attenuates the Inflammatory Gene Signature in Skin
Hinchcliff, Monique, Toledo, Diana M., Taroni, Jaclyn N., Wood, Tammara A., Franks, Jennifer M., Ball, Michael S., Hoffmann, Aileen, Amin, Sapna M., Tan, Ainah U., Tom, Kevin, Nesbeth, Yolanda, Lee, Jungwha, Ma, Madeleine, Aren, Kathleen, Carns, Mary A., Pioli, Patricia A., Whitfield, Michael L.
Published in Journal of investigative dermatology (01.06.2018)
Published in Journal of investigative dermatology (01.06.2018)
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Journal Article
A Multimodal Strategy Used by a Large c-di-GMP Network
Dahlstrom, Kurt M, Collins, Alan J, Doing, Georgia, Taroni, Jaclyn N, Gauvin, Timothy J, Greene, Casey S, Hogan, Deborah A, O'Toole, George A
Published in Journal of bacteriology (15.04.2018)
Published in Journal of bacteriology (15.04.2018)
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Journal Article
A novel multi-network approach reveals tissue-specific cellular modulators of fibrosis in systemic sclerosis
Taroni, Jaclyn N, Greene, Casey S, Martyanov, Viktor, Wood, Tammara A, Christmann, Romy B, Farber, Harrison W, Lafyatis, Robert A, Denton, Christopher P, Hinchcliff, Monique E, Pioli, Patricia A, Mahoney, J Matthew, Whitfield, Michael L
Published in Genome medicine (23.03.2017)
Published in Genome medicine (23.03.2017)
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Journal Article
Macrophages in SHH subgroup medulloblastoma display dynamic heterogeneity that varies with treatment modality
Dang, Mai T., Gonzalez, Michael V., Gaonkar, Krutika S., Rathi, Komal S., Young, Patricia, Arif, Sherjeel, Zhai, Li, Alam, Zahidul, Devalaraja, Samir, To, Tsun Ki Jerrick, Folkert, Ian W., Raman, Pichai, Rokita, Jo Lynne, Martinez, Daniel, Taroni, Jaclyn N., Shapiro, Joshua A., Greene, Casey S., Savonen, Candace, Mafra, Fernanda, Hakonarson, Hakon, Curran, Tom, Haldar, Malay
Published in Cell reports (Cambridge) (30.03.2021)
Published in Cell reports (Cambridge) (30.03.2021)
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Journal Article
annoFuse: an R Package to annotate, prioritize, and interactively explore putative oncogenic RNA fusions
Gaonkar, Krutika S, Marini, Federico, Rathi, Komal S, Jain, Payal, Zhu, Yuankun, Chimicles, Nicholas A, Brown, Miguel A, Naqvi, Ammar S, Zhang, Bo, Storm, Phillip B, Maris, John M, Raman, Pichai, Resnick, Adam C, Strauch, Konstantin, Taroni, Jaclyn N, Rokita, Jo Lynne
Published in BMC bioinformatics (14.12.2020)
Published in BMC bioinformatics (14.12.2020)
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Journal Article
Molecular characterization of systemic sclerosis esophageal pathology identifies inflammatory and proliferative signatures
Taroni, Jaclyn N, Martyanov, Viktor, Huang, Chiang-Ching, Mahoney, J Matthew, Hirano, Ikuo, Shetuni, Brandon, Yang, Guang-Yu, Brenner, Darren, Jung, Barbara, Wood, Tammara A, Bhattacharyya, Swati, Almagor, Orit, Lee, Jungwha, Sirajuddin, Arlene, Varga, John, Chang, Rowland W, Whitfield, Michael L, Hinchcliff, Monique
Published in Arthritis research & therapy (29.07.2015)
Published in Arthritis research & therapy (29.07.2015)
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Journal Article
Macrophages in SHH subgroup medulloblastoma display dynamic heterogeneity that varies with treatment modality
Dang, Mai T., Gonzalez, Michael V., Gaonkar, Krutika S., Rathi, Komal S., Young, Patricia, Arif, Sherjeel, Zhai, Li, Alam, Zahidul, Devalaraja, Samir, Jerrick To, Tsun Ki, Folkert, Ian W., Raman, Pichai, Rokita, Jo Lynne, Martinez, Daniel, Taroni, Jaclyn N., Shapiro, Joshua A., Greene, Casey S., Savonen, Candace, Mafra, Fernanda, Hakonarson, Hakon, Curran, Tom, Haldar, Malay
Published in Cell reports (Cambridge) (27.06.2023)
Published in Cell reports (Cambridge) (27.06.2023)
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Journal Article
Integrative Analysis Identifies Candidate Tumor Microenvironment and Intracellular Signaling Pathways that Define Tumor Heterogeneity in NF1
Banerjee, Jineta, Allaway, Robert J, Taroni, Jaclyn N, Baker, Aaron, Zhang, Xiaochun, Moon, Chang In, Pratilas, Christine A, Blakeley, Jaishri O, Guinney, Justin, Hirbe, Angela, Greene, Casey S, Gosline, Sara Jc
Published in Genes (21.02.2020)
Published in Genes (21.02.2020)
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Journal Article
Machine learning in rare disease
Banerjee, Jineta, Taroni, Jaclyn N, Allaway, Robert J, Prasad, Deepashree Venkatesh, Guinney, Justin, Greene, Casey
Published in Nature methods (01.06.2023)
Published in Nature methods (01.06.2023)
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Journal Article
Metabolic pathways and immunometabolism in rare kidney diseases
Grayson, Peter C, Eddy, Sean, Taroni, Jaclyn N, Lightfoot, Yaíma L, Mariani, Laura, Parikh, Hemang, Lindenmeyer, Maja T, Ju, Wenjun, Greene, Casey S, Godfrey, Brad, Cohen, Clemens D, Krischer, Jeffrey, Kretzler, Matthias, Merkel, Peter A
Published in Annals of the rheumatic diseases (01.08.2018)
Published in Annals of the rheumatic diseases (01.08.2018)
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Journal Article
A Functional Genomic Meta-Analysis of Clinical Trials in Systemic Sclerosis: Toward Precision Medicine and Combination Therapy
Taroni, Jaclyn N., Martyanov, Viktor, Mahoney, J. Matthew, Whitfield, Michael L.
Published in Journal of investigative dermatology (01.05.2017)
Published in Journal of investigative dermatology (01.05.2017)
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Journal Article
Integrated machine learning pipeline for aberrant biomarker enrichment (i-mAB): characterizing clusters of differentiation within a compendium of systemic lupus erythematosus patients
Le, Trang T, Blackwood, Nigel O, Taroni, Jaclyn N, Fu, Weixuan, Breitenstein, Matthew K
Published in AMIA ... Annual Symposium proceedings (2018)
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Published in AMIA ... Annual Symposium proceedings (2018)
Journal Article
Stress granules and RNA processing bodies are novel autoantibody targets in systemic sclerosis
Johnson, Michael E, Grassetti, Andrew V, Taroni, Jaclyn N, Lyons, Shawn M, Schweppe, Devin, Gordon, Jessica K, Spiera, Robert F, Lafyatis, Robert, Anderson, Paul J, Gerber, Scott A, Whitfield, Michael L
Published in Arthritis research & therapy (22.01.2016)
Published in Arthritis research & therapy (22.01.2016)
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Journal Article