Peer-Reviewed Journal Articles

Published in Internationally Recognized Peer-Reviewed Journals

AMPEL Genomic Platform (AGP®) Bioinformatic Tools and Machine Learning Analytics

Abnormalities in intron retention characterize patients with Systemic Lupus Erythematosus
Nature Sci. Rep. 13:5141, 2023.

Anti-RNP antibodies are associated with the interferon gene signature but not decreased complement levels in SLE
Ann Rheum Dis, 2022.

Application of machine learning for patient classification and outcome prediction in RAIDS (Rheumatic Autoimmune Inflammatory Diseases)
Nature Reviews Rheumatology 17: 710, 2021. (featured on printed cover and website landing page, December 2021).

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,
Genes 12: 1898, 2021.

Expression of human endogenous retroviruses in Systemic Lupus Erythematosus: multiomic integration with gene expression
Frontiers in Immunology 4:661437, 2021.
doi: 10.3389/fimmu.2021.661437.

Glutathione peroxidase 4-regulated neutrophil ferroptosis induces systemic autoimmunity
Nature Immunology 22:1107, 2021.

Repositioning Drugs for Systemic Lupus Erythematosus
SLE: Basic, Applied and Clinical Aspects, pp. 641, 2020.

Antagonizing miR-7 suppresses B cell hyperresponsiveness and inhibits lupus development.
J. Autoimmun. 109:102440, 2020.

Drug Repurposing to Improve the Treatment of Patients with Rheumatic Autoimmune Inflammatory Diseases (RAIDs)
Nature Reviews Rheumatology 16:32, 2020.

Systems and methods for single-cell RNA-Seq data analysis

Machine Learning Approaches to Predict Disease Activity from Gene Expression Data
Nature Scientific Reports 9:9617, 2019.

Genomic Identification of Low-Density Granulocytes and Analysis of their Role in the Pathogenesis of Systemic  Lupus Erythematosus
J. Immunol. 202:3309, 2019.

Identification and characterization of post-activated B cells in systemic autoimmune diseases
Frontiers in Immunology 10:2136, 2019.

Identification of alterations in macrophage polarization associated with disease activity in systemic lupus erythematosus
PLoS One 13(12):e0208132, 2018.

Aberrant Expansion and Function of Follicular Helper T Cell Subsets in IgG4-Related Disease
Arthritis Rheumatol.70:1853, 2018
doi: 10.1002/art.40556.

Drug Repositioning Strategies for the Identification of Novel Therapies  for Rheumatic Autoimmune Inflammatory Diseases
Rheum Dis Clin. 43:467-480, 2017.

Drug Repositioning in SLE: Crowd-Sourcing, Literature-Mining and Big Data Analysis
Lupus 25:1150-1170, 2016.

Repositioning Drugs for SLE
in SLE: Basic, Applied and Clinical Aspects, pp. 567-575, 2016.

The Epigenetics of Autoimmunity & Immune Disorders
in The Epigenome and Developmental Origins of Adult Health and Disease, pp. 211-234, 2015.

A comprehensive approach to identify approved drugs and treatments for repositioning as therapies for systemic lupus erythematosus
Arthr. Res. Ther. 16: 51, 2014.

Increased frequency of a unique spleen tyrosine kinase bright memory B cell population in systemic lupus erythematosus
Arthritis Rheumatol. 66:3424, 2014.

Lymphoablation including B cell depletion and autologous hematopoietic stem cell transplantation leads to long remissions in treatment- resistant Systemic Lupus Erythemstosus Patients
Arthritis and Rheum. 65: 1610, 2013.

Molecular Characterization of Circulating Plasma Cells in Patients with Active Systemic Lupus Erythematosus
PLoS One 10: e0044362, 2012.

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