Year	Publication Title	Core	Personnel
2020	Malignant round cell tumor with SS18‐POU5F1 fusion: is it a myoepithelial neoplasm, a synovial sarcoma or a new entity?	Gene Expression & Genotyping	Yanping Zhang
2021	Destabilization of Immersed Dense Granular Material Submitted to Localized Fluidization: An Experimental and Numerical Study	Gene Expression & Genotyping	Yanping Zhang
2022	Low-frequency variants in mildly symptomatic vaccine breakthrough infections presents a doubled-edged sword	Gene Expression & Genotyping	Yanping Zhang
2022	Endocrine, immune and renal toxicity in male largemouth bass after chronic exposure to glyphosate and Rodeo	Gene Expression & Genotyping	Yanping Zhang
2022	First in class multifunctional non classical antifolates inhibits thymidylate synthase and extends survival in pancreatic cancer model	Cytometry	Patrick Kellish
2022	Detection of PD-L1–Expressing Myeloid Cell Clusters in the Hyaluronan-Enriched Stroma in Tumor Tissue and Tumor-Draining Lymph Nodes	Cytometry	Mariza Miranda
2021	Conspecific and heterospecific pheromones stimulate dispersal of entomopathogenic nematodes during quiescence	Monoclonal Antibody	Angel Sampson
2021	Transfer of oral bacteria to the fetus during late gestation	Bioinformatics	Tongjun Gu
2021	Bioinformatics Core Survey Highlights the Challenges Facing Data Analysis Facilities	Bioinformatics	Alberto Riva
2022	PRC2 Inhibitors Overcome Glucocorticoid Resistance Driven by NSD2 Mutation in Pediatric Acute Lymphoblastic Leukemia	Bioinformatics	Alberto Riva
2022	Discordance between HIV-1 Population in Plasma at Rebound after Structured Treatment Interruption and Archived Provirus Population in Peripheral Blood Mononuclear Cells	Bioinformatics	Alberto Riva
2022	Rapid Emergence and Spread of Severe Acute Respiratory Syndrome Coronavirus 2 Gamma (P.1) Variant in Haiti	Bioinformatics	Alberto Riva
2022	Acquired Resistance to EZH2 Inhibitor GSK343 Promotes the Differentiation of Human DLBCL Cell Lines toward an ABC-Like Phenotype	Bioinformatics	Alberto Riva
2022	DNMT3A harboring leukemia-associated mutations directs sensitivity to DNA damage at replication forks	Bioinformatics	Alberto Riva
2022	Phylogenetic-informed graph deep learning to classify dynamic transmission clusters in infectious disease epidemics	Bioinformatics	Alberto Riva
2021	Methylscaper: an R/Shiny app for joint visualization of DNA methylation and nucleosome occupancy in single-molecule and single-cell data	Bioinformatics	Alberto Riva
2021	Functional CRISPR Screening Identifies Ptprg As a Driver of Migration and Adhesion in NSD2-E1099K ALL	Bioinformatics	Alberto Riva
2021	Dnmt3a Mutations in the Hematopoietic System Promote Colitis-Associated Colon Cancer: A Model of Clonal Hematopoiesis in Solid Tumors	Bioinformatics	Alberto Riva
2021	Adenylate Kinase 2 Is a Selective Multiple Myeloma Cell Dependency That Is Preferentially Essential in NSD2-Overexpressing Cells	Bioinformatics	Alberto Riva
2021	Dysregulation of Epigenetic Landscape Uncovered the Mechanisms Underlying the Relapse of Pediatric Acute Lymphoblastic Leukemia with NSD2 Mutation	Bioinformatics	Alberto Riva
2021	CLONAL HEMATOPOIESIS DRIVEN BY PARTIAL DNMT3A LOSS CONTRIBUTES TO AN AGGRESSIVE PHENOTYPE OF COLITIS-ASSOCIATED COLON CANCER	Bioinformatics	Alberto Riva
2021	Examination of CA1 Hippocampal DNA Methylation as a Mechanism for Closing of Estrogen's Critical Window	Bioinformatics	Alberto Riva
2021	HDAC8 activity regulates stress induced phenotype switching in melanoma	Bioinformatics	Alberto Riva
2021	SARS-CoV-2 infection of BNT162b2(mRNA)-vaccinated individuals is not restricted to variants of concern or high-risk exposure environments	Bioinformatics, Gene Expression & Genotyping, NextGen DNA Sequencing	Alberto Riva, Yanping Zhang, David Moraga
2022	SARS-CoV-2 Delta vaccine breakthrough transmissibility in Alachua County, Florida	Bioinformatics, Gene Expression & Genotyping, NextGen DNA Sequencing	Alberto Riva, Yanping Zhang, David Moraga
2022	Low-frequency variants in mildly symptomatic vaccine breakthrough infections presents a doubled-edged sword	Bioinformatics, Gene Expression & Genotyping, NextGen DNA Sequencing	Alberto Riva, Yanping Zhang, David Moraga
2021	SARS-CoV-2 shifting transmission dynamics and hidden reservoirs potentially limit efficacy of public health interventions in Italy	Bioinformatics	Alberto Riva
2021	Brain tissue transcriptomic analysis of SIV-infected macaques identifies several altered metabolic pathways linked to neuropathogenesis and poly (ADP-ribose) polymerases (PARPs) as potential therapeutic targets	Bioinformatics, NextGen DNA Sequencing	Alberto Riva, David Moraga
2021	Effects of photo-stimulation with laser or LED on the composition of Xanthan gum produced in media containing distilled water or dialyzed or not produced water by means of Raman spectroscopy	NextGen DNA Sequencing	David Moraga
2021	Systematic assessment of long-read RNA-seq methods for transcript identification and quantificationffects of photo-stimulation with laser or LED on the composition of Xanthan gum produced in media containing distilled water or dialyzed or not produced water by means of Raman spectroscopy	NextGen DNA Sequencing	David Moraga
2021	Novel application of single-cell next-generation sequencing for determination of intratumoral heterogeneity of canine osteosarcoma cell lines	Bioinformatics	Alberto Riva
2021	Dnmt3b Catalytic Activity is critical for its tumour suppressor function in lymphomagenesis and is associated with c-Met oncogenic signaling	Bioinformatics	Alberto Riva
2021	Exertional heat stroke leads to concurrent long-term epigenetic memory, immunosuppression and altered heat shock response in female mice	Bioinformatics	Alberto Riva
2021	Analysis of canine myeloid-derived suppressor cells (MDSCs) utilizing fluorescence-activated cell sorting, RNA protection mediums to yield quality RNA for single-cell RNA sequencing	Bioinformatics, Cytometry	Alberto Riva, Andria Doty
2021	Microglial FACS for Robust RNA Recovery for Next-Generation Sequencing	Cytometry	Andria Doty
2021	The Value of Integrating Fluorescent Imaging and Immunohistochemistry for Future Anatomical Studies in Aesthetic Surgery: Lessons From the Cerebrospinal Fluid (CSF) Circulatory System of Human Nerves and Brain	Cytometry	Doug Smith
2021	A robust method of nuclei isolation for single-cell RNA sequencing of solid tissues from the plant genus Populus	Cytometry	Andria Doty, Mariza Miranda
2021	Biological features between miRNA and their targets are unveiled from deep learning models	Bioinformatics	Tongjun Gu
2021	Sequencing of Argonaute-bound microRNA/mRNA hybrids reveals regulation of the unfolded protein response by microRNA-320a	Bioinformatics	Tongjun Gu
2020	miTAR: a hybrid deep learning-based approach for predicting miRNA targets	Bioinformatics	Tongjun Gu
2020	Uterine infusion of bacteria alters the transcriptome of bovine oocytes	Bioinformatics	Fahong Yu
2021	Azithromycin and Ciprofloxacin Can Promote Antibiotic Resistance in Biosolids and Biosolids-Amended Soils	Bioinformatics	Fahong Yu
2022	Endocrine, immune and renal toxicity in male largemouth bass after chronic exposure to glyphosate and Rodeo®	Bioinformatics	Fahong Yu
2021	Clinical efficacy of spray-based heat-treated lactobacilli in canine atopic dermatitis: a preliminary, open-label, uncontrolled study	Bioinformatics, Gene Expression & Genotyping	Fahong Yu, Yanping Zhang
2021	Dissemination mechanisms of NDM genes in hospitalized patients	Bioinformatics	Fahong Yu
2020	Dissemination Mechanisms of New Delhi Metallo-β-lactamase Genes in Hospitalized Patients	Bioinformatics	Fahong Yu
2021	Genomic and Targeted Approaches Unveil the Cell Membrane as a Major Target of the Antifungal Cytotoxin Amantelide A	Bioinformatics	Tongjun Gu
2021	Comparative structural, biophysical, and receptor binding study of true type and wild type AAV2	Electron Microscopy	Paul Chipman
2021	pH-Induced Conformational Changes of Human Bocavirus Capsids	Electron Microscopy	Paul Chipman
2022	Characterization of the Serpentine Adeno-Associated Virus (SAAV) Capsid Structure: Receptor Interactions and Antigenicity	Electron Microscopy	Paul Chipman
2022	Structural characterization of an envelope-associated adeno-associated virus type 2 capsid	Electron Microscopy	Paul Chipman
2021	Improved Genome Packaging Efficiency of Adeno-associated Virus Vectors Using Rep Hybrids	Electron Microscopy	Paul Chipman
2021	Completion of the AAV Structural Atlas: Serotype Capsid Structures Reveals Clade-Specific Features	Electron Microscopy	Paul Chipman
2021	Structurally Mapping Antigenic Epitopes of Adeno-associated Virus 9: Development of Antibody Escape Variants	Electron Microscopy	Paul Chipman
2020	Structural Characterization of Cuta- and Tusavirus: Insight into Protoparvoviruses Capsid Morphology	Electron Microscopy	Paul Chipman
2020	Structural characterization of a bat Adeno-associated virus capsid	Electron Microscopy	Paul Chipman
2020	Characterization of AAV-Specific Affinity Ligands: Consequences for Vector Purification and Development Strategies	Electron Microscopy	Paul Chipman
2022	Carry-over effects of dry period heat stress on the mammary gland proteome and phosphoproteome in the subsequent lactation of dairy cows	Proteomics & Mass Spectrometry	Jin Koh, Ning Zhu, Fanchao Zhu
2013	Quantitative proteomics of vitreous humor to identify potential markers involved in the induction of posterior vitreous detachment	Proteomics & Mass Spectrometry	Jin Koh
2020	Proteomics data of SNF1-related protein kinase 2.4 interacting proteins revealed by immunoprecipitation-mass spectrometry	Proteomics & Mass Spectrometry	Jin Koh
2015	Spaceflight Induces Specific Alterations in the Proteomes of Arabidopsis	Proteomics & Mass Spectrometry, Administration	Jin Koh, Anna-Lisa Paul
2018	Follicular fluid exosomes act on the bovine oocyte to improve oocyte competence to support development and survival to heat shock	Proteomics & Mass Spectrometry	Jin Koh
2017	Remodeling of the Streptococcus mutans proteome in response to LrgAB and external stresses	Proteomics & Mass Spectrometry	Jin Koh
2019	Label-free and iTRAQ proteomics analysis in the liver of zebrafish (Danio rerio) following dietary exposure to the organochlorine pesticide dieldrin	Proteomics & Mass Spectrometry	Jin Koh
2020	Diversity in A? deposit morphology and secondary proteome insolubility across models of Alzheimer-type amyloidosis	Proteomics & Mass Spectrometry	Jin Koh, Fanchao Zhu
2017	Uncovering stem cell differentiation factors for salivary gland regeneration by quantitative analysis of differential proteomes	Proteomics & Mass Spectrometry	Jin Koh
2018	CD117+ Exosomes and Mast Cells From Hereditary Alpha Tryptasemia Patients Reveal Unique Phosphorylation, Lipidomics, and Proteomics Profiles: Category Award (Small Intestine): Presidential Poster Award	Proteomics & Mass Spectrometry	Jin Koh
2020	Jasmonate induced alternative splicing responses in Arabidopsis	Proteomics & Mass Spectrometry	Jin Koh
2020	Secretome Analysis of Inductive Signals for BM-MSC Transdifferentiation into Salivary Gland Progenitors	Proteomics & Mass Spectrometry	Jin Koh
2020	Bisphenol A and bisphenol S disruptions of the mouse placenta and potential effects on the placenta-brain axis	Proteomics & Mass Spectrometry	Jin Koh, Ning Zhu
2020	Identification of proteins associated with two diverse Caulobacter Phicbkviruses	Proteomics & Mass Spectrometry	Ran Zheng, Fanchao Zhu
2016	Genome-wide identification and homeolog-specific expression analysis of the SnRK2 genes in Brassica napus guard cells	Proteomics & Mass Spectrometry	Jin Koh, Ning Zhu
2019	Hepatic proteome network data in zebrafish (Danio rerio) liver following dieldrin exposure	Proteomics & Mass Spectrometry	Jin Koh
2019	The Proteome of Pancreatic Cancer?Derived Exosomes Reveals Signatures Rich in Key Signaling Pathways	Proteomics & Mass Spectrometry	Fanchao Zhu
2018	Quantitative assessment of intestinal stiffness and associations with fibrosis in human inflammatory bowel disease	Cytometry	Andria Doty
2016	The differential frequency of Lineage?CRTH2?CD45+NKp44?CD117?CD127+ILC subset in the inflamed terminal ileum of patients with Crohn’s disease	Cytometry	Andria Doty
2020	A novel approach to study markers of dopamine signaling in peripheral immune cells	Cytometry	Andria Doty
2017	Increased Mucosal IL-22 Production of an IL-10RA Mutation Patient Following Anakinra Treatment Suggests Further Mechanism for Mucosal Healing	Cytometry	Andria Doty
2016	Aryl hydrocarbon receptor signaling involves in the human intestinal ILC3/ILC1 conversion in the inflamed terminal ileum of Crohn’s disease patients	Cytometry	Andria Doty
2019	Dopamine transporter is dysregulated on the peripheral immune cells of drug naïve Parkinson's Disease patients	Cytometry	Andria Doty
2013	In vitro studies on the role of seminal plasma proteins on the interaction between polymorphonuclear neutrophils (PMNs) and spermatozoa in the horse	Cytometry	Andria Doty
2020	Novel CD33 antibodies unravel localization, biology and therapeutic implications of CD33 isoforms	Cytometry	Andria Doty
2019	A New Ball for an Old Trick: Paramagnetic Cell Sorting of Human Mesenchymal Stem Cells from Adipose Tissue	Cytometry	Andria Doty
2019	Characterization and printability of Sodium alginate -Gelatin hydrogel for bioprinting NSCLC co-culture	Cytometry	Mariza Miranda
2021	Cytotoxic and chemosensitizing effects of glycoalkaloidic extract on 2D and 3D models using RT4 and patient derived xenografts bladder cancer cells	Cytometry	Mariza Miranda
2017	Structural Insights into Human Bocaparvoviruses	Electron Microscopy	Paul Chipman
2016	Cryo-electron Microscopy Reconstruction and Stability Studies of the Wild Type and the R432A Variant of Adeno-associated Virus Type 2 Reveal that Capsid Structural Stability Is a Major Factor in Genome Packaging	Electron Microscopy	Paul Chipman
2020	Comparative Analysis of the Capsid Structures of AAVrh.10, AAVrh.39, and AAV8	Electron Microscopy	Paul Chipman
2018	Atomic structure of a rationally engineered gene delivery vector, AAV2.5	Electron Microscopy	Paul Chipman
2017	Atomic Resolution Structures of Human Bufaviruses Determined by Cryo-Electron Microscopy	Electron Microscopy	Paul Chipman
2015	Adeno-Associated Virus Serotype 1 (AAV1)- and AAV5-Antibody Complex Structures Reveal Evolutionary Commonalities in Parvovirus Antigenic Reactivity	Electron Microscopy	Paul Chipman
2018	AAV6 K531 serves a dual function in selective receptor and antibody ADK6 recognition	Electron Microscopy	Paul Chipman
2017	Atomic Resolution Structure of the Oncolytic Parvovirus LuIII by Electron Microscopy and 3D Image Reconstruction	Electron Microscopy	Paul Chipman
2018	High-Resolution Structural Characterization of a New Adeno-associated Virus Serotype 5 Antibody Epitope toward Engineering Antibody-Resistant Recombinant Gene Delivery Vectors	Electron Microscopy	Paul Chipman
2013	Membrane curvature in flaviviruses	Electron Microscopy	Paul Chipman
2020	Molecular biology and structure of a novel penaeid shrimp densovirus elucidate convergent parvoviral host capsid evolution	Electron Microscopy	Paul Chipman
2016	Microbatch Mixing: “Shaken not Stirred”, a Method for Macromolecular Microcrystal Production for Serial Crystallography	Electron Microscopy	Paul Chipman
2018	Structural Characterization of Emerging Pathogenic Human Parvoviruses	Electron Microscopy	Paul Chipman
2020	Characterization of AAV-Specific Affinity Ligands: Consequences for Vector Purification and Development Strategies	Electron Microscopy	Paul Chipman
2016	Structural Rearrangements in R432A Variant of AAV2 Affect Genome Packaging	Electron Microscopy	Paul Chipman
2014	Adeno-associated virus serotypes 1 and 5 – antibody complex structures reveal evolutionary commonalities in parvovirus antigenic reactivity	Electron Microscopy	Paul Chipman
2016	Characterizing AAV CaptureSelect Affinity Ligand Interactions	Electron Microscopy	Paul Chipman
2016	Megalocytivirus infection in cultured Nile tilapia Oreochromis niloticus	Electron Microscopy	Karen Kelley
2013	Transgenerational Transmission of the Glossina pallidipes Hytrosavirus Depends on the Presence of a Functional Symbiome	Electron Microscopy	Karen Kelley
2021	The Mechanism of Mitochondrial Injury in Alpha-1 Antitrypsin Deficiency Mediated Liver Disease	Electron Microscopy	Karen Kelley
2022	Effect of Nanosulfur Against Multidrug-Resistant Staphylococcus pseudintermedius and Pseudomonas aeruginosa	Electron Microscopy	Karen Kelley
2013	Immunohistochemical Detection of a Unique Protein within Cells of Snakes Having Inclusion Body Disease, a World-Wide Disease Seen in Members of the Families Boidae and Pythonidae	Electron Microscopy	Karen Kelley
2013	Megalocytivirus infection in orbiculate batfish Platax orbicularis	Electron Microscopy	Karen Kelley
2015	Carp Edema Virus Disease (CEVD) / Koi Sleepy Disease (KSD)1	Electron Microscopy	Karen Kelley
2020	Isolation, Characterization, and Complete Genome Sequence of a Bradyrhizobium Strain Lb8 From Nodules of Peanut Utilizing Crack Entry Infection	Electron Microscopy	Karen Kelley
2020	Characterization of a novel picornavirus isolated from moribund aquacultured clownfish	Electron Microscopy	Karen Kelley, Paul Chipman, Rudy Alvarado,
2015	Reduced Infectivity in Cattle for an Outer Membrane Protein Mutant of Anaplasma marginale	Electron Microscopy	Karen Kelley
2017	A Dimorphic and Virulence-Enhancing Endosymbiont Bacterium Discovered in Rhizoctonia solani	Electron Microscopy	Karen Kelley
2014	Akashiwo sanguinea (Dinophyceae) extruding mucous from pores on the cell surface	Electron Microscopy	Karen Kelley
2019	Hierarchical self-assembly and emergent function of densely glycosylated peptide nanofibers	Electron Microscopy	Karen Kelley
2017	Physiological, molecular and ultrastructural analyses during ripening and over?ripening of banana (Musa spp., AAA group, Cavendish sub?group) fruit suggest characteristics of programmed cell death	Electron Microscopy	Karen Kelley
2013	A method for preparing spaceflight RNAlater?fixed Arabidopsis thaliana (Brassicaceae) tissue for scanning electron microscopy	Electron Microscopy, Administration	Karen Kelley, Anna-Lisa Paul
2017	In situ observations of Akashiwo sanguinea(Dinophyceae) displaying life cycle stages during blooms in a subtropical estuary	Electron Microscopy	Karen Kelley
2018	Involvement of Root Hair during Rhizobial Invasion in Cultivated Peanut (Arachis hypogaea L.)	Electron Microscopy	Karen Kelley
2016	Genetic characterization of esocid herpesvirus 1 (EsHV1)	Electron Microscopy	Karen Kelley
2019	A defective release of host defense peptides is present in canine atopic skin	Electron Microscopy	Karen Kelley
2014	Ball Python Nidovirus: a Candidate Etiologic Agent for Severe Respiratory Disease in Python regius	Electron Microscopy	Karen Kelley
2021	Injectable nanofibrillar hydrogels based on charge-complementary peptide co-assemblies	Electron Microscopy	Karen Kelley, Kimberly Backer-Kelley
2015	Antimicrobial dressing efficacy against mature Pseudomonas aeruginosa biofilm on porcine skin explants	Monoclonal Antibody	Edith Sampson
2013	Development of a novel ex vivo porcine skin explant model for the assessment of mature bacterial biofilms	Monoclonal Antibody	Edith Sampson
2015	The collagen binding protein Cnm contributes to oral colonization and cariogenicity of Streptococcus mutans OMZ175	Monoclonal Antibody	Edith Sampson
2019	GSTA4 mediates reduction of cisplatin ototoxicity in female mice	Monoclonal Antibody	Edith Sampson
2018	Deletion of a conserved transcript PG_RS02100 expressed during logarithmic growth in Porphyromonas gingivalis results in hyperpigmentation and increased tolerance to oxidative stress	Monoclonal Antibody	Edith Sampson
2017	Lack of pheromone reduces nematode dispersal	Monoclonal Antibody	Edith Sampson
2014	Streptococcus mutans OMZ175 invasion of human tissues in culture	Monoclonal Antibody	Edith Sampson
2015	Development and validation of a competitive enzyme-linked immunosorbent assay for the measurement of total plasma immunoglobulins in healthy loggerhead sea (Caretta caretta) and green turtles (Chelonia mydas)	Monoclonal Antibody	Shadi Bootorabi
2018	Transcript Profiling of MRSA Biofilms Treated with a Halogenated Phenazine Eradicating Agent: A Platform for Defining Cellular Targets and Pathways Critical to Biofilm Survival	Gene Expression & Genotyping	Yanping Zhang
2013	The Arabidopsis Mediator complex subunits MED14/SWP and MED16/SFR6/IEN1 differentially regulate defense gene expression in plant immune responses	Gene Expression & Genotyping	Yanping Zhang
2015	Arabidopsis Elongator subunit 2 positively contributes to resistance to the necrotrophic fungal pathogens Botrytis cinerea and Alternaria brassicicola	Gene Expression & Genotyping	Yanping Zhang
2018	Exogenous Nicotinamide Adenine Dinucleotide Induces Resistance to Citrus Canker in Citrus	Gene Expression & Genotyping	Yanping Zhang
2016	Effects of Long-Term Exercise on Age-Related Hearing Loss in Mice	Gene Expression & Genotyping	Yanping Zhang
2017	Single-cell gene expression of the bovine blastocyst	Gene Expression & Genotyping	Yanping Zhang
2019	Extracellular pyridine nucleotides trigger plant systemic immunity through a lectin receptor kinase/BAK1 complex	Gene Expression & Genotyping	Yanping Zhang
2014	Catechol-O-Methyltransferase Polymorphisms Predict Opioid Consumption in Postoperative Pain	Gene Expression & Genotyping	Yanping Zhang
2019	Increased burden of mitochondrial DNA deletions and point mutations in early-onset age-related hearing loss in mitochondrial mutator mice	Gene Expression & Genotyping	Yanping Zhang
2015	Gene expression profiling leads to discovery of correlation of matrix metalloproteinase 11 and heparanase 2 in breast cancer progression	Gene Expression & Genotyping	Yanping Zhang
2018	The Arabidopsis Elongator Subunit ELP3 and ELP4 Confer Resistance to Bacterial Speck in Tomato	Gene Expression & Genotyping	Yanping Zhang
2016	The Elongator complex?associated protein DRL1 plays a positive role in immune responses against necrotrophic fungal pathogens in Arabidopsis	Gene Expression & Genotyping	Yanping Zhang
2019	Transcriptomic Analysis of Aedes aegypti Innate Immune System in Response to Ingestion of Chikungunya Virus	Gene Expression & Genotyping	Yanping Zhang
2013	Gene expression profiling in the ovary of Queen conch (Strombus gigas) exposed to environments with high tributyltin in the British Virgin Islands	Gene Expression & Genotyping	Yanping Zhang
2015	The Arabidopsis Mediator Complex Subunit16 Is a Key Component of Basal Resistance against the Necrotrophic Fungal Pathogen Sclerotinia sclerotiorum	Gene Expression & Genotyping	Yanping Zhang
2017	A lectin receptor kinase as a potential sensor for extracellular nicotinamide adenine dinucleotide in Arabidopsis thaliana	Gene Expression & Genotyping	Yanping Zhang
2013	The Arabidopsis Elongator Complex Subunit2 Epigenetically Regulates Plant Immune Responses	Gene Expression & Genotyping, Bioinformatics, NextGen DNA Sequencing	Yanping Zhang, David Moraga Amador, Fahong Yu
2018	Transcriptome analysis reveals novel insights into the response of low-dose benzo(a)pyrene exposure in male tilapia	NextGen DNA Sequencing	David Moraga Amador
2018	Identification of a metabolic disposal route for the oncometabolite S-(2-succino)cysteine in Bacillus subtilis	NextGen DNA Sequencing	David Moraga Amador
2020	Investigating the gene expression profiles of rehabilitated Florida manatees (Trichechus manatus latirostris) following red tide exposure	NextGen DNA Sequencing, Bioinformatics	David Moraga Amador, Fahong Yu
2019	Endohyphal bacteria associated with virulence, increased expression of fumonisin biosynthetic genes, and production of fumonisin and macroconidia in Fusarium fujikuroi W343	NextGen DNA Sequencing, Electron Microscopy	David Moraga Amador, Karen Kelley
2018	Tissue-Based Mapping of the Fathead Minnow (Pimephales promelas) Transcriptome and Proteome	NextGen DNA Sequencing, Bioinformatics	David Moraga Amador, Fahong Yu
2018	Gene expression profile and molecular pathway datasets resulting from benzo(a)pyrene exposure in the liver and testis of adult tilapia	NextGen DNA Sequencing	David Moraga Amador
2013	Custom microarray construction and analysis for determining potential biomarkers of subchronic androgen exposure in the Eastern Mosquitofish (Gambusia holbrooki)	NextGen DNA Sequencing, Bioinformatics	David Moraga Amador, Fahong Yu
2020	Enabling the Spaceflight Methylome: DNA Isolated from Plant Tissues Preserved in RNAlater® Is Suitable for Bisulfite PCR Assay of Genome Methylation	NextGen DNA Sequencing, Administration	David Moraga Amador, Anna-Lisa Paul
2020	Brain tissue transcriptomic analysis of SIV-infected macaques identifies Poly (ADP-ribose) polymerases (PARPs) as potential biomarkers for neuropathogenesis	Bioinformatics	David Moraga Amador, Alberto Riva
2020	Combining epiGBS markers with long read transcriptome sequencing to assess differentiation associated with habitat in Reynoutria (aka Fallopia)	NextGen DNA Sequencing	David Moraga Amador
2013	Modified Library Construction Method for 3-5kb Illumina Mate-pair Libraries	NextGen DNA Sequencing	David Moraga Amador, Nedka Panayotova, Xiao H. Zhou
2018	S?Succinylcysteine Breakdown – How Bacillus subtilis Utilizes an Inevitable Product of Metabolite Damage	NextGen DNA Sequencing	David Moraga Amador
2013	Direct Sequencing of Linear DNA on PacBio RS Without Library Preparation	NextGen DNA Sequencing	David Moraga Amador, Xiao H. Zhou
2013	Library Construction for Genome-wide Bisulfite Sequencing in Plants	NextGen DNA Sequencing	David Moraga Amador
2019	Spaceflight-induced alternative splicing during seedling development in Arabidopsis thaliana	Bioinformatics, Administration	W. Brad Barbazuk, Anna-Lisa Paul
2013	Complete Genome Sequence of Serratia liquefaciens Strain ATCC 27592	NextGen DNA Sequencing	Nedka Panayotova
2013	Complete Genome Sequence of Carnobacterium gilichinskyi Strain WN1359T (DSM 27470T)	NextGen DNA Sequencing	Nedka Panayotova
2014	Tyrosine phosphorylation of protein kinase complex BAK1/BIK1 mediates Arabidopsis innate immunity	Proteomics & Mass Spectrometry	Ning Zhu
2015	Gold Nanoparticle-Enabled Blood Test for Early Stage Cancer Detection and Risk Assessment	Proteomics & Mass Spectrometry	Ning Zhu
2013	Proteomic profiling of developing cotton fibers from wild and domesticated Gossypium barbadense	Proteomics & Mass Spectrometry	Jin Koh
2019	Streamlining DNA Sequencing and Bioinformatics Analysis Using Software Containers	Bioinformatics	W. Brad Barbazuk, Tongjun Gu, Alberto Riva, Fahong Yu
2015	Comparative Proteomic Analysis of Brassica napus in Response to Drought Stress	Proteomics & Mass Spectrometry	Ning Zhu, Jin Koh
2019	Physiological and comparative proteomic analyses of saline-alkali NaHCO3-responses in leaves of halophyte Puccinellia tenuiflora	Proteomics & Mass Spectrometry	Ning Zhu
2018	Proteome analysis of Aspergillus flavus isolate-specific responses to oxidative stress in relationship to aflatoxin production capability	Proteomics & Mass Spectrometry	Jin Koh
2016	Clinical effects of driver somatic mutations on the outcomes of patients with myelodysplastic syndromes treated with allogeneic hematopoietic stem-cell transplantation	Bioinformatics	Alberto Riva
2017	UTX/KDM6A loss enhances the malignant phenotype of multiple myeloma and sensitizes cells to EZH2 inhibition	Bioinformatics	Alberto Riva
2014	Multiplex mapping of chromatin accessibility and DNA methylation within targeted single molecules identifies epigenetic heterogeneity in neural stem cells and glioblastoma	Bioinformatics	Alberto Riva
2017	DNA methylation of synaptic genes in the prefrontal cortex is associated with aging and age-related cognitive impairment	Bioinformatics	Alberto Riva
2015	BigQ: a NoSQL based framework to handle genomic variants in i2b2	Bioinformatics	Alberto Riva
2018	SIRT1/HERC4 Locus Associated With Bisphosphonate?Induced Osteonecrosis of the Jaw: An Exome?Wide Association Analysis	Bioinformatics	Alberto Riva
2013	PASTA: splice junction identification from RNA-Sequencing data	Bioinformatics	Alberto Riva
2014	Influence of the Prader-Willi syndrome imprinting center on the DNA methylation landscape in the mouse brain	Bioinformatics	Alberto Riva
2019	A mutation in histone H2B represents a new class of oncogenic driver	Bioinformatics	Alberto Riva
2017	Dissecting low atmospheric pressure stress: transcriptome responses to the components of hypobaria in Arabidopsis	Bioinformatics, Administration	Alberto Riva, Anna-Lisa Paul
2017	Genome-wide prioritization and transcriptomics reveal novel signatures associated with thiazide diuretics blood pressure response	Bioinformatics	Alberto Riva
2019	Catalytically inactive Dnmt3b rescues mouse embryonic development by accessory and repressive functions	Bioinformatics	Alberto Riva
2016	Nitrogen starvation?induced accumulation of triacylglycerol in the green algae: evidence for a role for ROC40, a transcription factor involved in circadian rhythm	Proteomics & Mass Spectrometry	Jin Koh, Ning Zhu
2015	The murine Pbx1-d lupus susceptibility allele accelerates mesenchymal stem cell differentiation and impairs their immunosuppressive function	Bioinformatics	Alberto Riva, Fahong Yu
2018	A gain of function mutation in the NSD2 histone methyltransferase drives glucocorticoid resistance of acute lymphoblastic leukemia	Bioinformatics	Alberto Riva
2020	Clinical Utility of Pharmacogene Panel?Based Testing in Patients Undergoing Percutaneous Coronary Intervention	Bioinformatics	Alberto Riva
2020	Seaweed natural products modify the host inflammatory response via Nrf2 signaling and alter colon microbiota composition and gene expression	Proteomics & Mass Spectrometry	Fanchao Zhu
2018	Mechanism sharing between genetic and gestational hypoxia-induced cardiac anomalies	Bioinformatics	Alberto Riva
2014	Thiol?based redox proteins in abscisic acid and methyl jasmonate signaling in Brassica napus guard cells	Proteomics & Mass Spectrometry	Ning Zhu
2019	DNMT3A with Leukemia-Associated Mutations Directs Sensitivity to DNA Damage at Replication Forks	Bioinformatics	Alberto Riva
2017	Patterns of Arabidopsis gene expression in the face of hypobaric stress	Bioinformatics, Administration	Alberto Riva, Anna-Lisa Paul
2019	Identification of Genetic Vulnerabilities and Synthetic-Lethal Targets in NSD2-High Multiple Myeloma	Bioinformatics	Alberto Riva
2019	A Gain of Function Mutation in the NSD2 Histone Methyltransferase Drives Glucocorticoid Resistance Via Blocking Receptor Auto-Induction and BIM/Bmf Expression in ALL	Bioinformatics	Alberto Riva
2013	Proteomic Analysis of Salt Tolerance in Sugar Beet Monosomic Addition Line M14	Proteomics & Mass Spectrometry	Ning Zhu, Jin Koh
2019	Splicing repressor HNRNPC is an indispensable and'druggable'target in acute myeloid leukemia	Bioinformatics	Alberto Riva
2019	NetZen: A comprehensive network-based pathway and target discovery platform	Bioinformatics	Alberto Riva
2019	ESTIMATING THE CLINICAL VALUE OF A CUSTOMIZED CARDIOVACULAR PHARMACOGENETICS PANEL.	Bioinformatics	Alberto Riva
2018	PREVALENCE OF ACTIONABLE GENOTYPES AND DRUG EXPOSURE AMONG PATIENTS UNDERGOING CARDIAC CATHETERIZATION IN THE UNIVERSITY OF FLORIDA PERSONALIZED MEDICINE PROGRAM.	Bioinformatics	Alberto Riva
2017	SIRT1 SNPs Associated with Bisphosphonate-related Osteonecrosis of the Jaw (ONJ).	Bioinformatics	Alberto Riva
2013	Quantitative proteomics of tomato defense against Pseudomonas syringae infection	Proteomics & Mass Spectrometry	Ning Zhu, Jin Koh
2018	DAMON: an open source framework for reliable and reproducible analysis pipelines	Bioinformatics	Alberto Riva
2017	Metabolomics and Proteomics of Brassica napus Guard Cells in Response to Low CO2	Proteomics & Mass Spectrometry	Ning Zhu
2017	Data Fusion Approach for Learning Transcriptional Bayesian Networks	Bioinformatics	Alberto Riva
2017	Patterns of Arabidopsis	Bioinformatics, Administration	Alberto Riva, Anna-Lisa Paul
2016	Identification of Idd22 Candidate Genes Using a Bioinformatics Approach	Bioinformatics	Alberto Riva
2015	Gene-Expression Novelty in Allopolyploid Cotton: A Proteomic Perspective	Proteomics & Mass Spectrometry	Jin Koh
2016	FINDING A NEEDLE IN THE HAYSTACK FOR THIAZIDE DIURETIC RESPONSE USING GENOMICS/TRANSCRIPTOMICS IN THE PHARMACOGENOMIC EVALUATION OF ANTIHYPERTENIVE RESPONSES (PEAR) STUDY.: PT-24	Bioinformatics	Alberto Riva
2015	Redox proteomics of tomato in response to Pseudomonas syringae infection	Proteomics & Mass Spectrometry	Ning Zhu
2014	Information Processing at the Cellular Level: Beyond the Dogma	Bioinformatics	Alberto Riva
2016	PARylation of the forkhead?associated domain protein DAWDLE regulates plant immunity	Proteomics & Mass Spectrometry	Ning Zhu
2018	Sex-specific airway hyperreactivity and sex-specific transcriptome remodeling in neonatal piglets challenged with intra-airway acid	Bioinformatics	Tongjun Gu
2018	Dicer cleaves 5?-extended microRNA precursors originating from RNA polymerase II transcription start sites	Bioinformatics	Tongjun Gu
2017	Modification of the Streptococcus mutans transcriptome by LrgAB and environmental stressors	Bioinformatics	Tongjun Gu
2015	cysTMTRAQ—An Integrative Method for Unbiased Thiol-based Redox Proteomics	Proteomics & Mass Spectrometry	Ning Zhu, Fanchao Zhu
2017	GSR is not essential for the maintenance of antioxidant defenses in mouse cochlea: Possible role of the thioredoxin system as a functional backup for GSR	Bioinformatics	Tongjun Gu
2016	Quantitative proteomics and phosphoproteomics of sugar beet monosomic addition line M14 in response to salt stress	Proteomics & Mass Spectrometry	Jin Koh
2019	Integrating multi-platform genomic datasets for kidney renal clear cell carcinoma subtyping using stacked denoising autoencoders	Bioinformatics	Tongjun Gu
2014	The ctenophore genome and the evolutionary origins of neural systems	Bioinformatics	Fahong Yu
2014	In vitro selection with artificial expanded genetic information systems	Bioinformatics	Fahong Yu
2015	SMRT Sequencing of Long Tandem Nucleotide Repeats in SCA10 Reveals Unique Insight of Repeat Expansion Structure	Bioinformatics	Fahong Yu
2013	Comparative genomic and transcriptome analyses of pathotypes of Xanthomonas citri subsp. citri provide insights into mechanisms of bacterial virulence and host range	Bioinformatics	Fahong Yu
2017	Reprogramming of a defense signaling pathway in rough lemon and sweet orange is a critical element of the early response to ‘Candidatus Liberibacter asiaticus’	Bioinformatics	Fahong Yu
2017	Bicarbonate Induced Redox Proteome Changes in Arabidopsis Suspension Cells	Proteomics & Mass Spectrometry	Ning Zhu
2019	Type I interferon and interferon?stimulated gene expression in oral epithelial cells	Bioinformatics	Fahong Yu
2016	Draft genome sequence of Fusicladium effusum, cause of pecan scab	Bioinformatics	Fahong Yu
2016	Identification of thioredoxin targets in guard cell enriched epidermal peels using cysTMT proteomics	Proteomics & Mass Spectrometry	Ning Zhu
2017	Responses of the Housefly, Musca domestica, to the Hytrosavirus Replication: Impacts on Host's Vitellogenesis and Immunity	Bioinformatics	Fahong Yu
2020	Mice lacking uterine enhancer of zeste homolog 2 have transcriptomic changes associated with uterine epithelial proliferation	Bioinformatics	Fahong Yu
2020	Uterine infection alters the transcriptome of the bovine reproductive tract three months later	Bioinformatics	Fahong Yu
2018	The Effect of Permethrin Resistance on Aedes aegypti Transcriptome Following Ingestion of Zika Virus Infected Blood	Bioinformatics	Fahong Yu
2017	Identification of Gene Candidates Associated with Huanglongbing Tolerance, Using ‘Candidatus Liberibacter asiaticus’ Flagellin 22 as a Proxy to Challenge Citrus	Bioinformatics	Fahong Yu
2016	Critical Role of COI1-Dependent Jasmonate Pathway in AAL toxin induced PCD in Tomato Revealed by Comparative Proteomics	Proteomics & Mass Spectrometry	Ning Zhu, Jin Koh
2013	An EST database of the Caribbean fruit fly, Anastrepha suspensa (Diptera: Tephritidae)	Bioinformatics	Fahong Yu
2015	Salt stress response of membrane proteome of sugar beet monosomic addition line M14	Proteomics & Mass Spectrometry	Ning Zhu, Jin Koh
2014	Correlation of gene expression and contaminant concentrations in wild largescale suckers: A field-based study	Bioinformatics	Fahong Yu
2016	New nodes and edges in the glucosinolate molecular network revealed by proteomics and metabolomics of Arabidopsis myb28/29 and cyp79B2/B3 glucosinolate mutants	Proteomics & Mass Spectrometry	Ning Zhu
2015	HPV Population Profiling in Healthy Men by Next-Generation Deep Sequencing Coupled with HPV-QUEST	Bioinformatics	Fahong Yu
2013	Organ-specific remodeling of the Arabidopsis transcriptome in response to spaceflight	Administration	Anna-Lisa Paul
2013	Spaceflight engages heat shock protein and other molecular chaperone genes in tissue culture cells of Arabidopsis thaliana	Administration	Anna-Lisa Paul
2021	Epigenomic Regulators Elongator Complex Subunit 2 and Methyltransferase 1 Differentially Condition the Spaceflight Response in Arabidopsis	Administration	Anna-Lisa Paul
2022	Plants grown in Apollo lunar regolith present stress-associated transcriptomes that inform prospects for lunar exploration	Administration	Anna-Lisa Paul
2022	Effects of oxygen fertilization on damage reduction in flooded snap bean (Phaseolus vulgaris L.)	Administration	Anna-Lisa Paul
2021	High Throughput Ground-Based Reduced-Gravity Testing	Administration	Anna-Lisa Paul
2021	Shared Metabolic Remodeling Processes Characterize the Transcriptome of Arabidopsis thaliana within Various Suborbital Flight Environments	Administration	Anna-Lisa Paul
2013	Fundamental plant biology enabled by the space shuttle	Administration	Anna-Lisa Paul
2014	Molecular Reprogramming of Arabidopsis in Response to Perturbation of Jasmonate Signaling	Proteomics & Mass Spectrometry	Jin Koh
2016	The effect of spaceflight on the gravity-sensing auxin gradient of roots: GFP reporter gene microscopy on orbit	Administration	Anna-Lisa Paul
2017	Genetic dissection of the Arabidopsis spaceflight transcriptome: Are some responses dispensable for the physiological adaptation of plants to spaceflight?	Administration	Anna-Lisa Paul
2014	Proteomics profiling of fiber development and domestication in upland cotton (Gossypium hirsutum L.)	Proteomics & Mass Spectrometry	Jin Koh
2017	Skewing in Arabidopsis roots involves disparate environmental signaling pathways	Administration	Anna-Lisa Paul
2015	Phosphomimetic mutation of a conserved serine residue in Arabidopsis thaliana 14-3-3? suggests a regulatory role of phosphorylation in dimerization and target interactions	Administration	Anna-Lisa Paul
2017	Multiplex quantitative SILAC for analysis of archaeal proteomes: a case study of oxidative stress responses	Proteomics & Mass Spectrometry	Jin Koh
2018	Utilization of single?image normalized difference vegetation index (SI?NDVI) for early plant stress detection	Administration	Anna-Lisa Paul
2015	Spaceflight exploration in plant gravitational biology	Administration	Anna-Lisa Paul
2019	Epigenomics in an extraterrestrial environment: organ-specific alteration of DNA methylation and gene expression elicited by spaceflight in Arabidopsis thaliana	Administration	Anna-Lisa Paul
2017	ARG1 functions in the physiological adaptation of undifferentiated plant cells to spaceflight	Administration	Anna-Lisa Paul
2014	Mapping by VESGEN of leaf venation patterning in Arabidopsis with bioinformatic dimensions of gene expression	Administration	Anna-Lisa Paul
2013	Deployment of a fully-automated green fluorescent protein imaging system in a high arctic autonomous greenhouse	Administration	Anna-Lisa Paul
2019	HSFA2 functions in the physiological adaptation of undifferentiated plant cells to spaceflight	Administration	Anna-Lisa Paul
2014	Arabidopsis thaliana for spaceflight applications–preparing dormant biology for passive stowage and on orbit activation	Administration	Anna-Lisa Paul
2019	The plant health monitoring system of the EDEN ISS space greenhouse in Antarctica during the 2018 experiment phase	Administration	Anna-Lisa Paul
2013	Integrated Proteomics and Metabolomics of Arabidopsis Acclimation to Gene-Dosage Dependent Perturbation of Isopropylmalate Dehydrogenases	Proteomics & Mass Spectrometry	Ning Zhu
2018	Comparing RNA?Seq and microarray gene expression data in two zones of the Arabidopsis root apex relevant to spaceflight	Administration	Anna-Lisa Paul
2016	Root growth patterns and morphometric change based on the growth media	Administration	Anna-Lisa Paul
2019	Cardiac MLC2 kinase is localized to the Z-disc and interacts with ?-actinin2	Proteomics & Mass Spectrometry	Jin Koh
2020	Root Skewing-Associated Genes Impact the Spaceflight Response of Arabidopsis thaliana	Administration	Anna-Lisa Paul
2013	Multispectral plant health imaging system for space biology and hypobaric plant growth studies	Administration	Anna-Lisa Paul
2016	Regulation of BZR1 in fruit ripening revealed by iTRAQ proteomics analysis	Proteomics & Mass Spectrometry	Ning Zhu
2019	A member of the CONSTANS-like protein family is a putative regulator of reactive oxygen species homeostasis and spaceflight physiological adaptation	Administration	Anna-Lisa Paul
2018	A Robust Methodology for Assessing Differential Homeolog Contributions to the Transcriptomes of Allopolyploids	Proteomics & Mass Spectrometry, Bioinformatics	Jin Koh,
2014	Flexible imaging payload for real-time fluorescent biological imaging in parabolic, suborbital and space analog environments	Administration	Anna-Lisa Paul
2020	NDVI Imaging within Space Exploration Plant Growth Modules–A Case Study from EDEN ISS Antarctica	Administration	Anna-Lisa Paul
2020	Approaches for Surveying Cosmic Radiation Damage in Large Populations of Arabidopsis thaliana Seeds–Antarctic Balloons and Particle Beams	Administration, Bioinformatics	Anna-Lisa Paul
2019	Modelling Leaf Temperatures during Parabolic Flights	Administration	Anna-Lisa Paul
2018	Phenotypic characterization of an Arabidopsis T-DNA insertion line SALK_063500	Administration	Anna-Lisa Paul
2018	Dispersal of Human-Commensals at the Haughton Mars Project (HMP) Arctic Field-Site: Implications for the Forward Contamination Around Human Habitats on Mars	Administration	Anna-Lisa Paul
2018	Plants as Part of the Deep Space Exploration Schema	Administration	Anna-Lisa Paul
2013	Proteomic comparison of basal endosperm in maize miniature1 mutant and its wild-type Mn1	Proteomics & Mass Spectrometry	Ning Zhu
2017	Spectral Imaging within EDEN ISS for Plant Health and Productivity Assessment	Administration	Anna-Lisa Paul
2014	Identification of Regulatory Factors for Mesenchymal Stem Cell-Derived Salivary Epithelial Cells in a Co-Culture System	Proteomics & Mass Spectrometry	Jin Koh
2017	Data for characterization of SALK_084889, a T-DNA insertion line of Arabidopsis thaliana	Administration	Anna-Lisa Paul
2016	Effects of Applying Hydrogen Peroxide on Phosphorus Uptake and Adhase Activity of Flooded Snap Bean Roots	Administration	Anna-Lisa Paul
2016	APEX-04 SpaceX-10	Administration	Anna-Lisa Paul
2015	Differential metabolomic responses of PAMP-triggered immunity and effector-triggered immunity in Arabidopsis suspension cells	Proteomics & Mass Spectrometry	Ning Zhu
2013	Advanced Colloids Experiment (ACE) Science Overview	Administration	Anna-Lisa Paul
2015	Quantitative proteomics reveals an important role of GsCBRLK in salt stress response of soybean	Proteomics & Mass Spectrometry	Ning Zhu, Jin Koh
2013	GENE EXPRESSION IN SPACE BIOLOGY	Administration	Anna-Lisa Paul
2017	Identification of MAPK Substrates Using Quantitative Phosphoproteomics	Proteomics & Mass Spectrometry	Ning Zhu
2013	Resetting the course of drug development: stem cell banking in support of drug discovery	Administration	Steve Madore
2018	Characterization of thiol?based redox modifications of Brassica napusSNF1?related protein kinase 2.6?2C	Proteomics & Mass Spectrometry	Jin Koh
2017	Membrane Proteomics of Arabidopsis Glucosinolate Mutants cyp79B2/B3 and myb28/29	Proteomics & Mass Spectrometry	Ning Zhu
2014	Thiol-based Redox Proteins in Brassica napus Guard Cell Abscisic Acid and Methyl Jasmonate Signaling	Proteomics & Mass Spectrometry	Ning Zhu
2020	Redox proteomics of stomatal immunity reveals role of a lipid transfer protein in plant defense	Proteomics & Mass Spectrometry	Ning Zhu, Fanchao Zhu