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View article: Tracking HIV persistence across T cell lineages during early ART-treated HIV-1-infection using a reservoir-marking humanized mouse model
Tracking HIV persistence across T cell lineages during early ART-treated HIV-1-infection using a reservoir-marking humanized mouse model Open
Human immunodeficiency virus (HIV) infection depletes CD4 T-cells, and long-term persistence of latent virus prevents full clearance of HIV even in the presence of effective antiretroviral therapy (ART), Here we present the HIV-1-induced l…
View article: Isoform-resolved transcriptome of the human preimplantation embryo
Isoform-resolved transcriptome of the human preimplantation embryo Open
Human preimplantation development involves extensive remodeling of RNA expression and splicing. However, its transcriptome has been compiled using short-read sequencing data, which fails to capture most full-length mRNAs. Here, we generate…
View article: An atlas of late prenatal human neurodevelopment resolved by single-nucleus transcriptomics
An atlas of late prenatal human neurodevelopment resolved by single-nucleus transcriptomics Open
View article: Unannotated small RNA clusters associated with circulating extracellular vesicles detect early stage liver cancer
Unannotated small RNA clusters associated with circulating extracellular vesicles detect early stage liver cancer Open
Objective Surveillance tools for early cancer detection are suboptimal, including hepatocellular carcinoma (HCC), and biomarkers are urgently needed. Extracellular vesicles (EVs) have gained increasing scientific interest due to their invo…
View article: EPCO-20. RELATING GLIOBLASTOMA HETEROGENEITY TO HUMAN FETAL GLIAL DEVELOPMENT THROUGH HIGH RESOLUTION SINGLE NUCLEI TRANSCRIPTOMICS
EPCO-20. RELATING GLIOBLASTOMA HETEROGENEITY TO HUMAN FETAL GLIAL DEVELOPMENT THROUGH HIGH RESOLUTION SINGLE NUCLEI TRANSCRIPTOMICS Open
Glioblastoma (GBM) is thought to be driven by a therapy-resistant cancer stem cell population that recapitulates developmental phenotypes. Direct comparisons of GBM to glial states during human fetal development are limited due to paucity …
View article: exRNA Signatures in Extracellular Vesicles and their Tumor-Lineage from Prostate Cancer
exRNA Signatures in Extracellular Vesicles and their Tumor-Lineage from Prostate Cancer Open
Circulating extracellular vesicles (EVs) present in the bodily fluids of patients with cancer may provide non-invasive access to the tumor tissue. Yet, the transcriptomic lineage of tumor-derived EVs before and after tumor-resection remain…
View article: Cabozantinib in patients with platinum-refractory metastatic urothelial carcinoma: an open-label, single-centre, phase 2 trial
Cabozantinib in patients with platinum-refractory metastatic urothelial carcinoma: an open-label, single-centre, phase 2 trial Open
View article: Unannotated small RNA clusters in circulating extracellular vesicles detect early stage liver cancer
Unannotated small RNA clusters in circulating extracellular vesicles detect early stage liver cancer Open
Background Hepatocellular carcinoma (HCC) is among the deadliest malignancies and surveillance tools for early detection are suboptimal. Extracellular vesicles (EVs) have gained increasing scientific interest due to their involvement in tu…
View article: Diversity of peripheral blood human NK cells identified by single-cell RNA sequencing
Diversity of peripheral blood human NK cells identified by single-cell RNA sequencing Open
Human natural killer (NK) cells in peripheral blood perform many functions, and classification of specific subsets has been a longstanding goal. We report single-cell RNA sequencing of NK cells, comparing gene expression in unstimulated an…
View article: A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles
A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles Open
View article: Intratumoral heterogeneity and clonal evolution in liver cancer
Intratumoral heterogeneity and clonal evolution in liver cancer Open
View article: Additional file 3 of A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles
Additional file 3 of A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles Open
Additional file 3 Table S3. Subtype annotation of samples in 13 TCGA datasets by DeClust or TCGA.
View article: Additional file 4 of A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles
Additional file 4 of A reference profile-free deconvolution method to infer cancer cell-intrinsic subtypes and tumor-type-specific stromal profiles Open
Additional file 4 Table S4. Associations between somatic mutations or copy number alterations and subtypes by DeClust or TCGA.
View article: Multiparameter cell characterization using nanofluidic technology facilitates real-time phenotypic and genotypic elucidation of intratumor heterogeneity
Multiparameter cell characterization using nanofluidic technology facilitates real-time phenotypic and genotypic elucidation of intratumor heterogeneity Open
Genetic and functional complexity of bulk tumor has become evident through rapid advances in sequencing technologies. As a unique integrated approach to characterizing tumor heterogeneity, we demonstrate the multifaceted capabilities of a …
View article: Influenza virus infection causes global RNAPII termination defects
Influenza virus infection causes global RNAPII termination defects Open
View article: A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells
A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells Open
Our study sheds new light on EV mediated RNA communications between adipocyte and macrophage cells, which may play a significant role in developing insulin resistance in diabetic patients. This work establishes a new method that is applica…
View article: Characterization of drug-induced splicing complexity in prostate cancer cell line using long read technology
Characterization of drug-induced splicing complexity in prostate cancer cell line using long read technology Open
We characterize the transcriptional splicing landscape of a prostate cancer cell line treated with a previously identified synergistic drug combination. We use a combination of third generation long-read RNA sequencing technology and short…
View article: Additional file 2:Â Dataset S1. of A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells
Additional file 2:Â Dataset S1. of A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells Open
Informaiton of filted loci from adipocyte to macrophage and from macrophage to adipocyte. (XLS 3896 kb)
View article: Additional file 3: Dataset S2. of A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells
Additional file 3: Dataset S2. of A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells Open
Details of mRNA transfer analysis from macrophage to adipocyte. (XLSX 1903 kb)
View article: Additional file 5: Dataset S4. of A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells
Additional file 5: Dataset S4. of A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells Open
Differential genes between adipocyte cultured alone and co-cultured with macrophage and between macrophage alone and co-cultured with adipocyte. (XLSX 96 kb)
View article: Additional file 4:Â Dataset S3. of A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells
Additional file 4:Â Dataset S3. of A next generation sequencing based approach to identify extracellular vesicle mediated mRNA transfers between cells Open
Details of mRNA transfer analysis from adipocyte to macrophage. (XLSX 6308 kb)
View article: A MutSβ-Dependent Contribution of MutSα to Repeat Expansions in Fragile X Premutation Mice?
A MutSβ-Dependent Contribution of MutSα to Repeat Expansions in Fragile X Premutation Mice? Open
The fragile X-related disorders result from expansion of a CGG/CCG microsatellite in the 5' UTR of the FMR1 gene. We have previously demonstrated that the MSH2/MSH3 complex, MutSβ, that is important for mismatch repair, is essential for al…
View article: Muts Beta-dependent Contribution Of Muts Alpha To Repeat Expansions In Fragile X Premutation Mice?
Muts Beta-dependent Contribution Of Muts Alpha To Repeat Expansions In Fragile X Premutation Mice? Open