Journal: Clinical cancer research : an official journal of the American Association for Cancer Research

Article Title: Characterization of an Immunogenic Mutation in a Patient with Metastatic Triple-Negative Breast Cancer

doi: 10.1158/1078-0432.CCR-16-1423

Figure Lengend Snippet: Identification of RBPJ mutation-reactive TCR. A, 4062-TILs were cocultured with autologous APCs presenting RBPJA611T peptide and sorted on the basis of expression of CD4+/4–1BB+ by FACS. Data are gated on live CD3+ cells. B and C, TCR analysis revealed an oligoclonal population of TCR-α (B) and TCR-β (C) chains. Of note, 42.9% of the TCR-α chains were unresolved. On the basis of the frequency, the two most frequent TCR-α and TCR-β chains were used to synthesize the four possible TCR combinations. PBL transduced with TCRAV05 (the second most frequent alpha chain) and TCRBV07 (the most frequent beta chain) recognized APCs specifically presenting mutRBPJ based on IFNγ ELISPOT (D) and upregulation of 4–1BB (E) in the CD4+ T-cell population (▲, mutRBPJ; △, wtRBPJ; ○, irrelevant peptide). Data are representative of three separate patient TCR-transduced PBL.

Article Snippet: Alternatively, 4–1BB + – sorted cells were subjected to single-cell RNA sequencing (RNA-seq) on the Fluidigm C1, according to the manufacturer’s protocol and paired TCR-alpha and beta sequences were identified and synthesized (Genscript).

Techniques: Mutagenesis, Expressing, Transduction, Enzyme-linked Immunospot

Journal: Frontiers in Immunology

Article Title: Endothelial Immunity Trained by Coronavirus Infections, DAMP Stimulations and Regulated by Anti-Oxidant NRF2 May Contribute to Inflammations, Myelopoiesis, COVID-19 Cytokine Storms and Thromboembolism

doi: 10.3389/fimmu.2021.653110

Figure Lengend Snippet: (A–E) The mRNA transcripts of four types of coronavirus receptors such as membrane alanyl aminopeptidase (ANPEP, CD13, receptor for human coronavirus-229E), carcinoembryonic antigen family cell adhesion molecule 1 (CEACAM1, receptor for mouse hepatitis virus), angiotensin-converting enzyme 2 (ACE, receptor for SARS-CoV, SARS-CoV2), and dipeptidyl peptidase-4 (DPP4, receptor for MERS-CoV) as well as TMPRSS2 are found in two clusters of human heart endothelial cells. The data mining analyses were performed on the Single Cell RNA-Seq database of the Broad Institute of MIT and Harvard (Single CellBeta Portal; https://singlecell.broadinstitute.org/single_cell/study/SCP498/transcriptional-and-cellular-diversity-of-the-human-heart#study-summary ). (F–J) The mRNA transcripts of four types of coronavirus receptors such as ANPEP, CEACAM1, ACE, and DPP4 are found in mouse aortic endothelial cell clusters. The data mining analyses were performed on the Single Cell RNA-Seq database of the Broad Institute of MIT and Harvard (Single CellBeta Portal; https://singlecell.broadinstitute.org/single_cell/study/SCP289/single-cell-analysis-of-the-normal-mouse-aorta-reveals-functionally-distinct-endothelial-cell-populations#study-summay , PMID: 31146585). (F) ANPEP expressions in three endothelial cell clusters were circled in red in the Scatter; (G) ANPEP expressions in three endothelial cell clusters were boxed in red in the Distribution; (H) CEACAM1 expressions in three endothelial cell clusters were also boxed in read in the Distribution; (I) ACE expressions in three endothelial cell clusters were also boxed in read in the Distribution; (J) DPP4 expressions in three endothelial cell clusters were also boxed in read in the Distribution. (K) A new working model: Infection of vascular endothelial cells by SARS-CoV2/MERS-CoV causes innate immune responses in endothelial cells, which may induces cytokine storm, and triggers thromboembolism. The part of figure was created with BioRender.com .

Article Snippet: To test this hypothesis, we searched the expression of these four receptors and coronavirus S protein priming serine protease TMPRSS2 ( ) in human EC in the MIT-Harvard Broad Institute Single Cell Beta Porter single-cell RNA-Seq database, Study: Transcriptional and Cellular Diversity of the Human Heart ( https://singlecell.broadinstitute.org/single_cell/study/SCP498 ).

Techniques: Membrane, Virus, RNA Sequencing, Single-cell Analysis, Infection

Journal: Scientific Reports

Article Title: The RNA-binding protein CPEB1 marks healthy adult β cells in mice but is dispensable for β cell identity and function

doi: 10.1038/s41598-025-32403-1

Figure Lengend Snippet: Cpeb1 transcripts are expressed mainly in healthy β cells of murine pancreas and Cpeb1 expression is reduced during β cell development and diabetes in mice. ( A ) scRNA-seq data of the whole pancreas from Tabula Muris reveals predominant transcript expression of Cpeb1 in β cells, with sparse expression in other endocrine cells. ( B ) Percentage of Cpeb1 expressing cells and mean expression levels of Cpeb1 in the Tabula Muris scRNA-seq data. ( C ) Bulk RNA-seq of sorted β cells published in Nimkulrat et al. unveils a gradual increase of Cpeb1 expression from embryonic (E18.5) to neonate (P1, P7, and P10) and healthy adult β cells. ( D ) Cpeb1 transcript expression from Nimkulrat et al. dataset is reduced in both types of diabetes with a more significant reduction in NOD (type-1 diabetic mouse model) than BTBR ob / ob (type-2 diabetic mouse model). ( E ) Comparison between different Cpeb1 paralogs in Nimkulrat et al. dataset indicates that Cpeb1 is the dominant Cpeb paralog expressed in the β cells. ( F ) Comparison of Cpeb1 expression in male and female β cells in Nimkulrat et al. dataset shows higher expression in female β cells than in male β cells.

Article Snippet: To begin interrogating the role of CPEB1 in β cells, we first examined its expression in the islets of Langerhans using the Tabula Muris single cell RNA sequencing (scRNA-seq) database .

Techniques: Expressing, RNA Sequencing, Comparison