P. Kumar

Structures of the multi-domain oxygen sensor DosP: remote control of a c-di-GMP phosphodiesterase by a regulatory PAS domain

The paper determines six structures of DosP, revealing how its heme-binding PAS domain regulates c-di-GMP phosphodiesterase activity through allosteric mechanisms.

CyNET- a network analysis framework for high dimensionality, system level analyses of the functional Immunome

CyNET analyzes immune system networks to identify functional hubs and maturation patterns across age groups using single-cell transcriptomics.

Enhancing affinity of neutralizing SARS-CoV-2 nanobody through facile structure-guided mutations in CDRs

This study enhances the affinity of SARS-CoV-2 neutralizing nanobodies through structure-guided mutations in CDRs, resulting in improved neutralization activity against pseudovirus.

Imaging the extracellular matrix in live tissues and organisms with a glycan-binding fluorophore

This paper introduces a fluorophore for imaging extracellular matrix in live tissues and organisms by binding to glycans, enabling nonperturbative and wash-free visualization.

Repeat modules and N-linked glycans define structure and antigenicity of a critical enterotoxigenic E. coli adhesin

This study identifies key structural and glycosylation features of EtpA, an ETEC adhesin, and shows how antibodies target different epitopes to influence immune responses and pathogen-host interactions.

CD4 downregulation precedes Env expression and protects HIV-1-infected cells from ADCC mediated by non-neutralizing antibodies

The paper shows CD4 downregulation precedes Env expression in HIV-1-infected cells, making them resistant to non-neutralizing antibody-mediated ADCC.

MicroRNA hsa-miR-203a-3p promotes H1N1 and NDV Virus Replication by suppressing the IFNA signaling.

This study identifies miR-203a-3p as a pro-viral microRNA that suppresses type-I interferon signaling to promote H1N1 and NDV replication.

Delineating the heterogeneity of senescence-induced-functional alterations inhepatocytes

This study investigates how different stressors induce distinct senescence markers and bioenergetic changes in mouse hepatocytes and liver organoids.

Tumour-derived extracellular vesicles within the therapy-induced senescent secretome distinctly suppress breast cancer via DKK1-mediated inflammatory response.

This study identifies that TIS-derived extracellular vesicles suppress breast cancer through DKK1-mediated inflammation, contrasting with the pro-tumorigenic effects of the senescence-associated secretome.

Deciphering Oxygen Distribution and Hypoxia Profiles in the Tumor Microenvironment: A Data-Driven Mechanistic Modeling Approach

The paper develops a data-driven mechanistic model to quantify hypoxia profiles in tumors using reaction-diffusion equations and vascular data.

Single-cell and bulk transcriptional profiling of mouse ovaries reveals novel genes and pathways associated with DNA damage response in oocytes.

The paper uses single-cell and bulk RNA sequencing to study DNA damage response in mouse ovaries, identifying novel genes and pathways specific to oocytes.

HDAC inhibitor derivatives induce differentiation of leukemic cells through two distinct and separable mechanisms

The paper shows HDAC inhibitors induce AML cell differentiation via two distinct mechanisms: one through G1 arrest and another through G2 arrest via Aurora A and GSK3 inhibition.

Transforming chemigenetic bimolecular fluorescence complementation systems into chemical dimerizers using chemistry

The paper develops novel fluorogens that activate FAST proteins and convert splitFAST systems into chemical dimerizers, reducing the need for protein engineering.

Biomimetic Lipid-polymer composite membrane model to study Permeability through Cornea

This paper introduces a biomimetic lipid-polymer composite membrane model to study drug permeability through the cornea, showing it matches excised corneal permeation data.

Immunosuppressive tumor microenvironment of osteosarcoma

This study identifies immunosuppressive mechanisms in osteosarcoma using single-cell and spatial transcriptomics, revealing interactions between MDSCs, T-cells, and tumor cells that promote an immunosuppressive microenvironment.

Phosphatidic Acid Dependent Recruitment of Microtubule Motors to Spherical Supported Lipid Bilayers for In-vitro Motility Assays

This study shows that phosphatidic acid recruits specific motor proteins to lipid bilayers, enabling in-vitro motility and revealing mechanisms of cargo transport and direction reversal.

Exploiting rodent cell blocks for intrinsic resistance to HIV-1 gene expression in human T cells

This paper edits human T cells to mimic rodent host factors, creating resistance to HIV-1 and related lentiviruses by disrupting key viral protein interactions.

Nucleolus and centromere TSA-Seq reveals variable localization of heterochromatin in different cell types

The paper uses TSA-seq to map genomic regions near nucleoli and pericentric heterochromatin in human cell lines, revealing variable heterochromatin localization and complex nuclear organization.

A Toxoplasma gondii O-glycosyltransferase that modulates bradyzoite cyst wall rigidity is structurally and functionally distinct from host homologues

This study identifies and characterizes a Toxoplasma gondii O-glycosyltransferase, T.gondii-GalNAc-T3, revealing structural and functional differences from host homologues and identifying potential drug targets for parasitic diseases.

A translation proofreader of archaeal origin imparts multialdehyde stress tolerance to land plants

This study shows that the archaeal DTD2 enzyme protects plants from aldehyde toxicity by removing harmful adducts on tRNA, and its overexpression enhances aldehyde resistance in Arabidopsis.

CRISPR-Cas inhibits plasmid transfer and immunizes bacteria against antibiotic resistance acquisition in manure

This study shows CRISPR-Cas is prevalent and effective in inhibiting plasmid transfer and antibiotic resistance acquisition in agricultural manure.

Microevolution of clade II isolates of Candida auris highlights multifaceted intra-clade heterogeneity in acquiring resistance towards amphotericin B

This study evolves two clade II Candida auris isolates to develop amphotericin B resistance, revealing distinct mechanisms and intra-clade heterogeneity in resistance acquisition.

A comprehensive analysis of Transcribed Ultra Conserved Regions uncovers important regulatory functions of novel non-coding transcripts in gliomas.

This study analyzes Transcribed Ultra Conserved Regions (TUCRs) in gliomas, identifying uc.110 as a tumor enhancer that promotes malignancy via the WNT pathway.

14K Prolactin Derived 14-Mer Antiangiogenic Peptide Targets Bradykinin-/Nitric Oxide-cGMP-Dependent Angiogenesis

This study identifies a novel 14-mer antiangiogenic peptide derived from prolactin that inhibits bradykinin- and eNOS-dependent angiogenesis, showing synergistic effects with Avastin in a colon cancer model.

Met58 and di-acidic motif located at C-terminal region of SARS-CoV-2 ORF6 plays a crucial role in its structural conformations

The paper investigates the structural dynamics of the C-terminal region of SARS-CoV-2 ORF6, identifying key residues like Met58 and di-acidic motifs that influence its structural conformations and functional properties.

Size dependent diffusion and dispersion of particles in mucin

This study investigates particle diffusion and dispersion in mucin solutions and mixed with rock dust, finding size-dependent diffusion and effects of heterogeneity and electrostatic interactions.

Combinatorial Regimens Augment Drug Monotherapy for SARS-CoV-2 Clearance in Mice

This study evaluates DAAs and their combinations for SARS-CoV-2 clearance in mice, finding that dual-targeting regimens outperform monotherapies.

Periostin+ stromal cells guide lymphovascular invasion by cancer cells

This study identifies periostin-expressing cancer-associated fibroblasts that promote lymphatic metastasis by remodeling the extracellular matrix and facilitating cancer cell invasion.

Correlating physicochemical and biological properties to define critical quality attributes of a recombinant AAV vaccine candidate

The paper correlates physicochemical properties of an rAAV vaccine candidate with its biological potency, showing links between physical stability, transduction efficiency, and immunogenicity.

Paracrine enhancement of tumor cell proliferation provides indirect stroma-mediated chemoresistance via acceleration of tumor recovery between chemotherapy cycles.

The paper investigates how stromal factors indirectly enhance tumor chemoresistance by accelerating tumor recovery between chemotherapy cycles through paracrine signaling.