Yukie Kashima
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View article: Spatial gene expression analysis reveals pathological niches in Japanese encephalitis virus neuroinvasion
Spatial gene expression analysis reveals pathological niches in Japanese encephalitis virus neuroinvasion Open
Japanese encephalitis virus (JEV) infection causes encephalitis in humans and animals. Following intradermal infection, JEV crosses the blood–brain barrier (BBB) and reaches target cells in the brain parenchyma. However, the cellular dynam…
View article: Giant extrachromosomal element “Inocle” potentially expands the adaptive capacity of the human oral microbiome
Giant extrachromosomal element “Inocle” potentially expands the adaptive capacity of the human oral microbiome Open
View article: Trajectory analysis reveals an uncommitted neuroblastic state in MYCN-driven neuroblastoma development
Trajectory analysis reveals an uncommitted neuroblastic state in MYCN-driven neuroblastoma development Open
Background Understanding the factors that determine the spontaneous regression of pre-cancerous lesions is critical to advancing cancer prevention. Neuroblastoma, a pediatric cancer, undergoes spontaneous regression more frequently than ot…
View article: Amino acid substitutions in NSP6 and NSP13 of SARS-CoV-2 contribute to superior virus growth at low temperatures
Amino acid substitutions in NSP6 and NSP13 of SARS-CoV-2 contribute to superior virus growth at low temperatures Open
In general, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) replicates well at 37°C, which is the temperature of the human lower respiratory tract, but it poorly at 30°C‒32°C, which is the temperature of the human upper respir…
View article: Spatially resolved gene expression profiling of tumor microenvironment reveals key steps of lung adenocarcinoma development
Spatially resolved gene expression profiling of tumor microenvironment reveals key steps of lung adenocarcinoma development Open
The interaction of tumor cells and their microenvironment is thought to be a key factor in tumor development. We present spatial RNA profiles obtained from 30 lung adenocarcinoma patients at the non-invasive and later invasive stages. We u…
View article: Integrative single-cell RNA-seq and spatial transcriptomics analyses reveal diverse apoptosis-related gene expression profiles in EGFR-mutated lung cancer
Integrative single-cell RNA-seq and spatial transcriptomics analyses reveal diverse apoptosis-related gene expression profiles in EGFR-mutated lung cancer Open
In EGFR -mutated lung cancer, the duration of response to tyrosine kinase inhibitors (TKIs) is limited by the development of acquired drug resistance. Despite the crucial role played by apoptosis-related genes in tumor cell survival, how t…
View article: Detection of HPV DNA in Saliva of Patients with HPV-Associated Oropharyngeal Cancer Treated with Radiotherapy
Detection of HPV DNA in Saliva of Patients with HPV-Associated Oropharyngeal Cancer Treated with Radiotherapy Open
Background: To investigate the technical feasibility of RT–PCR and direct sequencing to quantify HPV DNA in the saliva of patients with Human-Papilloma-Virus related oropharyngeal cancer (HPV-OPC), the level of which is known to predict pr…
View article: Virological characteristics of a SARS-CoV-2-related bat coronavirus, BANAL-20-236
Virological characteristics of a SARS-CoV-2-related bat coronavirus, BANAL-20-236 Open
View article: Characterization of a SARS-CoV-2 EG.5.1 clinical isolate in vitro and in vivo
Characterization of a SARS-CoV-2 EG.5.1 clinical isolate in vitro and in vivo Open
EG.5.1 is a subvariant of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron XBB variant that is rapidly increasing in prevalence worldwide. However, the pathogenicity, transmissibility, and immune evasion properties …
View article: CDC7 inhibition induces replication stress-mediated aneuploid cells with an inflammatory phenotype sensitizing tumors to immune checkpoint blockade
CDC7 inhibition induces replication stress-mediated aneuploid cells with an inflammatory phenotype sensitizing tumors to immune checkpoint blockade Open
View article: Evolution of the viral genomes of SARS-CoV-2 in association with the changes in local condition: a genomic epidemiological study of a suburban city of Japan
Evolution of the viral genomes of SARS-CoV-2 in association with the changes in local condition: a genomic epidemiological study of a suburban city of Japan Open
Understanding the factors driving the spread and evolution of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) at the local, regional, national, and international levels is important in protecting against future pandemics. By e…
View article: Low albumin status accompanies multi-layered immunosuppressive phenotypes in metastatic breast cancer patients
Low albumin status accompanies multi-layered immunosuppressive phenotypes in metastatic breast cancer patients Open
Low albumin status is prevalent in advanced cancer patients, but the pathophysiology associated with this anomaly remains largely unexplored. To address this, we aim to search correlations of albumin levels with the transcriptome against p…
View article: Characterization of an EG.5.1 clinical isolate <i>in vitro</i> and <i>in vivo</i>
Characterization of an EG.5.1 clinical isolate <i>in vitro</i> and <i>in vivo</i> Open
EG.5.1 is a subvariant of the SARS-CoV-2 Omicron XBB variant that is rapidly increasing in prevalence worldwide. EG.5.1 has additional substitutions in its spike protein (namely, Q52H and F456L) compared with XBB.1.5. However, the pathogen…
View article: Comparative pathogenicity of SARS-CoV-2 Omicron subvariants including BA.1, BA.2, and BA.5
Comparative pathogenicity of SARS-CoV-2 Omicron subvariants including BA.1, BA.2, and BA.5 Open
View article: Efficacy of antivirals and mRNA vaccination against an XBF clinical isolate
Efficacy of antivirals and mRNA vaccination against an XBF clinical isolate Open
Recombination events occur frequently in severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), resulting in genetic diversity. Because these events contribute to altered host immune evasion and antiviral susceptibility, it is cruci…
View article: Figure S1 to S6 from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer
Figure S1 to S6 from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer Open
Supplementary Figure S1 to S6
View article: Supplementary Data Table S1 and S2 from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer
Supplementary Data Table S1 and S2 from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer Open
Supplementary Table S1 and S2
View article: Figure S1 to S6 from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer
Figure S1 to S6 from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer Open
Supplementary Figure S1 to S6
View article: Supplementary Data from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer
Supplementary Data from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer Open
Supplemental Legends
View article: Data from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer
Data from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer Open
Tumor heterogeneity underlies resistance to tyrosine kinase inhibitors (TKI) in lung cancers harboring EGFR mutations. Previous evidence suggested that subsets of preexisting resistant cells are selected by EGFR-TKI treatment, or al…
View article: Supplementary Data from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer
Supplementary Data from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer Open
Supplemental Legends
View article: Supplementary Data Table S1 and S2 from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer
Supplementary Data Table S1 and S2 from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer Open
Supplementary Table S1 and S2
View article: Data from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer
Data from Single-Cell Analyses Reveal Diverse Mechanisms of Resistance to EGFR Tyrosine Kinase Inhibitors in Lung Cancer Open
Tumor heterogeneity underlies resistance to tyrosine kinase inhibitors (TKI) in lung cancers harboring EGFR mutations. Previous evidence suggested that subsets of preexisting resistant cells are selected by EGFR-TKI treatment, or al…
View article: Efficacy of antivirals and bivalent mRNA vaccines against SARS-CoV-2 isolate CH.1.1
Efficacy of antivirals and bivalent mRNA vaccines against SARS-CoV-2 isolate CH.1.1 Open
View article: Multimodal single-cell analyses of peripheral blood mononuclear cells of COVID-19 patients in Japan
Multimodal single-cell analyses of peripheral blood mononuclear cells of COVID-19 patients in Japan Open
SARS-CoV-2 continues to spread worldwide. Patients with COVID-19 show distinct clinical symptoms. Although many studies have reported various causes for the diversity of symptoms, the underlying mechanisms are not fully understood. Periphe…
View article: CD70 is a therapeutic target upregulated in EMT-associated EGFR tyrosine kinase inhibitor resistance
CD70 is a therapeutic target upregulated in EMT-associated EGFR tyrosine kinase inhibitor resistance Open
View article: Single-cell transcriptome analysis illuminating the characteristics of species-specific innate immune responses against viral infections
Single-cell transcriptome analysis illuminating the characteristics of species-specific innate immune responses against viral infections Open
Background Bats harbor various viruses without severe symptoms and act as their natural reservoirs. The tolerance of bats against viral infections is assumed to originate from the uniqueness of their immune system. However, how immune resp…
View article: Single-cell transcriptome analysis illuminating the characteristics of species-specific innate immune responses against viral infections
Single-cell transcriptome analysis illuminating the characteristics of species-specific innate immune responses against viral infections Open
Bats harbor various viruses without severe symptoms and act as their natural reservoirs. The tolerance of bats against viral infections is assumed to originate from the uniqueness of their immune system. However, how immune responses vary …
View article: Single‐cell analytical technologies: uncovering the mechanisms behind variations in immune responses
Single‐cell analytical technologies: uncovering the mechanisms behind variations in immune responses Open
The immune landscape varies among individuals. It determines the immune response and results in surprisingly diverse symptoms, even in response to similar external stimuli. However, the detailed mechanisms underlying such diverse immune re…
View article: Intensive single-cell analysis reveals immune-cell diversity among healthy individuals
Intensive single-cell analysis reveals immune-cell diversity among healthy individuals Open
Immune responses are different between individuals and personal health histories and unique environmental conditions should collectively determine the present state of immune cells. However, the molecular systems underlying such heterogene…