Y. Rao

Hydrophobic bulk conservation and genetic code determine the pattern of prokaryotic genome organization

The paper analyzes prokaryotic genome organization patterns and finds that GC-content, mutational biases, and genetic code influence GC-skew, AT-skew, and gene strand bias through synonymous and nonsynonymous substitutions.

4D Crystallography Captures Transient IF1-Ribosome Dynamics in Translation Initiation

This study uses 4D crystallography to capture transient dynamics of IF1 binding to the 30S ribosomal subunit, revealing allostery and interactions during translation initiation.

Ambient Temperature Bacterial Large Ribosomal Subunit Structure Enabled by Serial Femtosecond X-ray Crystallography

This study determines the structure of the 50S ribosomal subunit from Thermus thermophilus at ambient temperature using serial femtosecond X-ray crystallography, revealing new dynamics and antibiotic binding sites.

CD4+ T cell senescence is associated with reduced reactogenicity in severe/critical COVID-19

The paper finds that higher levels of CD4+ T cell senescence in severe/critical COVID-19 patients correlate with reduced antibody responses and worse survival, especially in breakthrough infections.

Transgenic female mice producing trans 10, cis 12-conjugated linoleic acid present excessive prostaglandin E2, adrenaline, corticosterone, glucagon, and FGF21

This study shows that transgenic female mice producing t10c12-CLA exhibit metabolic changes including increased prostaglandin E2, adrenaline, corticosterone, glucagon, and FGF21, indicating systemic hormonal effects.

Metabolic impact of trans 10, cis 12-conjugated linoleic acid on pai transgenic mice

This study investigates the long-term metabolic effects of t10c12-CLA in transgenic mice, finding increased brown fat and reduced white fat, along with elevated FGF21 and thermogenesis.

Functional genomic analysis of adult and pediatric brain tumor isolates

This study identifies shared and unique gene dependencies between adult and pediatric brain tumor isolates using CRISPR screens and machine learning models.

Proliferative Exhausted CD8 T Cells Exacerbate Long-lasting Anti-tumor Effects in Human Papillomavirus Positive Head and Neck Squamous Cell Carcinoma

The paper identifies a proliferative exhausted CD8+ T cell cluster in HPV-positive HNSCC that correlates with better patient survival and suggests potential therapeutic implications.

3D-Printing in Radiation Oncology: Development and Validation of Custom 3D-Printed Brachytherapy Alignment Device and Phantom

This paper develops and validates a 3D-printed brachytherapy alignment device and anatomical phantom using patient CT data to improve needle alignment accuracy in radiation oncology.

Inter-subunit coupling enables fast CO2-fixation by reductive carboxylases

This paper investigates the structural and dynamic mechanisms of CO2 fixation by ECRs, revealing inter-subunit coupling that enables fast catalytic activity.

The Roles of APOBEC-mediated RNA Editing in SARS-CoV-2 Mutations, Replication, and Fitness

The paper shows host APOBEC3A, APOBEC1, and APOBEC3G edit SARS-CoV-2 RNA, promoting viral replication and suggesting APOBEC-mediated mutations contribute to viral evolution and new strain emergence.

A Potential Novel COVID-19 Vaccine With RBD-HR1/HR2 Hexamer Structure

This paper introduces a novel COVID-19 vaccine based on a RBD-HR1/HR2 hexamer structure that induces high neutralizing antibody titers and alternative antibodies targeting the HR1 region in mice.

Genomic and experimental evidence that alternate transcription initiation of the Anaplastic Lymphoma Kinase (ALK) kinase domain does not predict single agent sensitivity to ALK inhibitors.

The paper reanalyzes ALKATI's role in melanoma using genomic and experimental methods, finding it does not predict single-agent ALK inhibitor sensitivity.

Dual roles of a novel oncolytic viral vector-based SARS-CoV-2 vaccine: preventing COVID-19 and treating tumor progression

This paper develops an oncolytic viral vector-based vaccine that prevents COVID-19 and treats tumor progression in preclinical models.

Targeting CTP Synthetase 1 to Restore Interferon Induction and Impede Nucleotide Synthesis in SARS-CoV-2 Infection

This study identifies CTPS1 as a target for antiviral therapy by showing it suppresses interferon induction and promotes viral replication in SARS-CoV-2 infection.

Transcriptome analysis of Xanthomonas oryzae pv. oryzicola exposed to H2O2 reveals horizontal gene transfer contributes to its oxidative stress response

This study uses RNA-seq to analyze Xanthomonas oryzae pv. oryzicola's response to H2O2, revealing horizontal gene transfer's role in its oxidative stress response.

Prioritisation of oncology therapeutic targets using CRISPR-Cas9 screening

This study uses CRISPR-Cas9 screens in cancer cell lines to identify and prioritize new oncology therapeutic targets based on gene fitness, biomarkers, and tractability.

Aminoglycoside ribosome interactions reveal novel conformational states at ambient temperature

This study examines aminoglycoside interactions with the bacterial 30S ribosome at ambient and cryogenic temperatures, revealing temperature-sensitive conformational changes and new structural states.

β-lactam Antibiotics Stimulate the Pathogenicity of Methicillin-resistant Staphylococcus aureus Via SarA-controlled Tandem Lipoprotein Expression

This study shows that β-lactam antibiotics increase MRSA pathogenicity by upregulating the tlpps gene cluster via SarA, leading to enhanced inflammation and infection severity.

Structure of the 30S ribosomal decoding complex at ambient temperature

The paper reports an ambient-temperature X-ray crystal structure of the Thermus thermophilus 30S ribosomal decoding complex, showing consistency with cryogenic structures but with minor conformational variations.