Amruta Naik

ORCID: 0000-0003-0673-2643
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About
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Research Areas
  • Circadian rhythm and melatonin
  • Hepatitis C virus research
  • Spaceflight effects on biology
  • SARS-CoV-2 and COVID-19 Research
  • Neonatal Respiratory Health Research
  • RNA and protein synthesis mechanisms
  • Hepatitis B Virus Studies
  • Immune Cell Function and Interaction
  • Vaccine Coverage and Hesitancy
  • Asthma and respiratory diseases
  • Birth, Development, and Health
  • COVID-19 Clinical Research Studies
  • Genomics and Phylogenetic Studies
  • Chronic Obstructive Pulmonary Disease (COPD) Research
  • Cellular transport and secretion
  • Knee injuries and reconstruction techniques
  • Gut microbiota and health
  • Animal Virus Infections Studies
  • Monoclonal and Polyclonal Antibodies Research
  • Influenza Virus Research Studies
  • Molecular Biology Techniques and Applications
  • Immune responses and vaccinations
  • Infant Health and Development
  • Soft tissue tumors and treatment
  • Plant and Fungal Interactions Research

California University of Pennsylvania
2025

Children's Hospital of Philadelphia
2020-2024

University of Pennsylvania
2017-2024

Translational Therapeutics (United States)
2023-2024

Post Graduate Institute of Medical Education and Research
2020

University College Cork
2016-2019

National Centre for Biological Sciences
2018-2019

Maharashtra Hybrid Seeds (India)
2012

University of Bologna
2006

Abstract Fibroblasts are stromal cells abundant throughout tissues, including the lungs. integral coordinators of immune cell recruitment through chemokine secretion. Circadian rhythms direct to lung, which in turn impacts response infection and survival. Although fibroblasts display robust circadian rhythms, contribution fibroblast molecular clock lung‐specific migration remains be established. Mice challenged intranasally with lipopolysaccharide (LPS) at dusk showed increased expression...

10.1096/fj.202201456r article EN cc-by The FASEB Journal 2023-01-09

A graduate course on vaccine development challenged students to improve current supply chain readiness in the wake of a potential future pandemic. Students were asked develop blog discussing suitability chains for supporting development, distribution, and immunization. discuss reasonable approaches bottlenecks realistic expectations timelines improvements that could be implemented next 5 10 years. The class's recommendations focused strengthening response capacity distribution chain,...

10.2139/ssrn.5074164 preprint EN 2025-01-01

Many normal functions and pathologies trace back to RNA splicing. As such, splicing is currently the focus of a vast array studies. To quantify transcriptome, short read RNA-Seq remains standard assay. The primary technical artifact library prep, which severely interferes with analysis, extreme non-uniformity in coverage across transcripts. This present both bulk single-cell observed even when sample contains only full-length issue dramatically affects accuracy isoform-level quantification...

10.1101/2025.01.30.634337 preprint EN cc-by bioRxiv (Cold Spring Harbor Laboratory) 2025-01-31

We have previously demonstrated that the circadian clock regulates host response to influenza A virus (IAV) infection, conferring a time-of-day-specific protection; infection at dawn resulted in threefold increase survival and reduced immunopathology compared dusk. While IL–10 is well-known for its immunoregulatory function, role IAV remains unclear, with studies reporting both protective detrimental effects. Given diurnal rhythmicity of receptor (Il10ra) expression lung, we investigated...

10.1101/2025.03.03.641134 preprint EN 2025-03-10

Adverse early-life exposures have a lasting negative impact on health. Neonatal hyperoxia that is risk factor for bronchopulmonary dysplasia confers susceptibility to influenza A virus (IAV) infection later in life. Given our previous findings the circadian clock protects against IAV, we asked if long-term of neonatal vis-à-vis IAV includes disruption. Here, show abolishes clock-mediated time day protection from mice, independent viral burden through host tolerance pathways. We discovered...

10.7554/elife.61241 article EN cc-by eLife 2021-03-02

Optimal lung repair and regeneration are essential for recovery from viral infections, including influenza A virus (IAV). We have previously demonstrated that acute inflammation mortality induced by IAV is under circadian control. However, it not known whether the influence of clock persists beyond outcomes. Here, we utilize UK Biobank to demonstrate an association between poor rhythms morbidity lower respiratory tract need hospitalization after discharge; this even adjusting common...

10.1172/jci.insight.164720 article EN cc-by JCI Insight 2023-07-18

Simulation of RNA-seq reads is critical in the assessment, comparison, benchmarking and development bioinformatics tools. Yet field simulators has progressed little last decade. To address this need we have developed BEERS2, which combines a flexible highly configurable design with detailed simulation entire library preparation sequencing pipeline. BEERS2 takes input transcripts (typically fully length messenger RNA polyA tails) from either customizable or CAMPAREE simulated samples. It...

10.1093/bib/bbae164 article EN cc-by-nc Briefings in Bioinformatics 2024-03-26

Evidence is scarce to guide the use of nonsteroidal anti-inflammatory drugs (NSAIDs) mitigate severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) vaccine–related adverse effects, given possibility blunting desired immune response. In this pilot study, we deeply phenotyped a small number volunteers who did or not take NSAIDs concomitant with SARS-CoV-2 immunizations seek initial information on A vaccine–specific receptor binding domain (RBD) IgG antibody response and efficacy in...

10.1124/jpet.122.001415 article EN cc-by-nc Journal of Pharmacology and Experimental Therapeutics 2023-04-27

Phosphatidylcholine (PC)-specific phospholipase D (PLD) hydrolyzes the phosphodiester bond of PC to generate phosphatidic acid (PA) and regulates several subcellular functions. Mammalian genomes contain two genes encoding distinct isoforms PLD in contrast with invertebrate that include a single gene. However, significance within genome same biochemical activity remains unclear. Recently, loss function only gene Drosophila was reported result reduced PA levels PA-dependent collapse...

10.1042/bsr20181690 article EN Bioscience Reports 2018-10-28

Osteoid osteoma is a benign bone tumor, which represents approximately 10% of all tumors. When localized to the carpus, osteoid osteomas are most often seen in scaphoid and capitate. Rarely, these tumors can also be observed trapezium. Given infrequency with located trapezium nonspecific presenting symptoms, diagnosis this tumor challenging requires high index suspicion.

10.1155/2017/3683854 article EN cc-by Case Reports in Orthopedics 2017-01-01

The humoral immune system responds to chronic hepatitis C virus (HCV) infection by producing neutralising antibodies (nAb). In this study we generated three HCV pseudoparticles in which E1E2 glycoprotein sequence was targeted the host system. We used patient derived free Fabs (VF-Fabs) obtained from genotype 1a (n = 3), 1b 7) and 3a 1) for neutralisation of HCVpp produced both individually combination. Based on available anti-HCV monoclonal nAb mapping information selected amino acid region...

10.1371/journal.pone.0175349 article EN cc-by PLoS ONE 2017-05-30

Longitudinal analysis of chronic hepatitis C virus (HCV) infection has shown that the several adaptive strategies maintain persistence and infectivity over time. We examined four serum samples from same chronically infected HCV genotype 4a patient for presence IgG antibody-associated virus. RNA was isolated antibody-free virions. Subsequent to sequence analysis, 27 aa hypervariable region 1 (HVR1) peptides were used test humoral immune escape. demonstrated differential peptide binding Fab...

10.1099/jgv.0.000447 article EN Journal of General Virology 2016-03-04

Abstract Phospholipase D (PLD) is activated during the response of animal cells to a large number extracellular signals including growth factors, hormones and other stimuli. The product PLD activity, phosphatidic acid (PA) thought act as signalling molecule in cells. Since both substrate, phosphatidylcholine are membrane anchored lipids, precise localization activation at specific locations critical. Here we report that Drosophila (dPLD) photoreceptors critical maintain structure these...

10.1101/2024.09.22.614390 preprint EN cc-by-nc-nd bioRxiv (Cold Spring Harbor Laboratory) 2024-09-23

The study aimed to assess the safety, tolerability, and acceptability of IntegriMedical® Needle Free Injection System (IM-NFIS) compared conventional hypodermic needle injections (CHN) in healthy adult subjects across multiple injection sites.

10.2147/mder.s491883 article EN cc-by-nc Medical Devices Evidence and Research 2024-12-01
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