Additional file 1: Table S1. Incidental genetic findings identified across four study sites conducting genomic testing for pediatric patients (expanded version of Table 1).

Additional file 1: Table S1. Incidental genetic findings identified across four study sites conducting genomic testing for pediatric patients (expanded version of Table 1).

Gap-junctional signaling mediates myriad cellular interactions in metazoans. Yet, how gap junctions control the positioning of cells in organs is not well understood. Innexins compose gap junctions in invertebrates and affect organ architecture. Here, we investigate the roles of gap-junctions in controlling distal somatic gonad architecture and its relationship to underlying germline stem cells in Caenorhabditis elegans. We show that a reduction of soma-germline gap-junctional activity causes displacement of distal sheath cells (Sh1) towards the...

To analyze the long-term trends in pollen counts and asthma-related emergency department visits (AREDV) in adult and pediatric populations in the Bronx. Daily values of adult and pediatric AREDV were retrospectively obtained from three major Bronx hospitals using ICD-10 codes and pollen counts were obtained from the Armonk station from 2001–2020. Wilcoxon Ranked Sum was applied to compare median values, while Spearman correlation was employed to examine the association between these variables, for both decades...

Age-related macular degeneration (AMD), the leading cause of blindness among the elderly, is without treatment for early disease. Degenerative retinal pigment epithelial (RPE) cell heterogeneity is a well-recognized but understudied pathogenic factor. Due to the daily phagocytosis of photoreceptor outer segments, unique photo-oxidative stress, and high metabolism for maintaining vision, the RPE has robust macroautophagy/autophagy, and mitochondrial and antioxidant networks. However, the autophagy subtype, mitophagy, in the RPE and AMD is understudied. Here, we found...

Additional file 3: Table S1. Full metabolite profiling of the cell culture supernatant

Additional file 4: Table S2. Gene expression clustering

A tectonic switch from subduction to collision and/or arc–arc collision is a key issue for understanding accretionary orogenic processes. We present new U-Pb ages, geochemistry, whole-rock Nd and zircon Hf isotope data for a suite of late Carboniferous intrusive rocks along the Kalamaili suture zone of the southwestern Central Asian Orogenic Belt (CAOB) and demonstrate their petrogenesis and the transition of their tectonic settings. Zircon U-Pb dating for the gabbros, diorites, granodiorites, and monzogranites yields...

Additional file 1. Table S1. COVID-Specific Items and Scales. Table S2. Descriptive Statistics of Person-Reported Outcomes. Table S3. Unadjusted Group Comparisons on Person-Reported Outcomes. Table S4. Representativeness Checks. Table S5. Distribution of Covariates in the Matched Samples. Table S6. Comparison of Explained Variance by Demographics and COVID-specific Variables in Whole-Sample vs. Matched Cohort Analyses.

Additional file 3: Table S1. Full metabolite profiling of the cell culture supernatant

Additional file 1: Supplementary Spreadsheets and Figures. All spreadsheets for marker genes contain the following columns: p-value (pval), average log2 fold-change (avg_log2FC), percent of cells in the cluster expressing the marker (pct.1), percent of cells outside the cluster expressing the marker (pct.2), the multiple test corrected p-value (p_val_adj), the cluster number (cluster), the gene name (gene), the flybase id (Fbgn_ID), gene long name (GeneName), datestamp of flybase snapshot inclusion (datestamp) and the Flybase gene snapshot...

Additional file 1: Supplementary Table 1. Predictors of RFS, DFS, and OS in Cox proportional hazards models. Adjusted models are adjusted for all other covariates shown here. Supplementary Table 2. Association of richness and the Shannon diversity index with RFS, DFS, and OS in Cox proportional hazards models. Analyses were performed on the tumor tissue microbiome data and normal tissue microbiome data. Adjusted models are adjusted for age, sex, race, histology, smoking, and chemotherapy. Supplementary...

Age-related macular degeneration (AMD), the leading cause of blindness among the elderly, is without treatment for early disease. Degenerative retinal pigment epithelial (RPE) cell heterogeneity is a well-recognized but understudied pathogenic factor. Due to the daily phagocytosis of photoreceptor outer segments, unique photo-oxidative stress, and high metabolism for maintaining vision, the RPE has robust macroautophagy/autophagy, and mitochondrial and antioxidant networks. However, the autophagy subtype, mitophagy, in the RPE and AMD is understudied. Here, we found...

Age-related macular degeneration (AMD), the leading cause of blindness among the elderly, is without treatment for early disease. Degenerative retinal pigment epithelial (RPE) cell heterogeneity is a well-recognized but understudied pathogenic factor. Due to the daily phagocytosis of photoreceptor outer segments, unique photo-oxidative stress, and high metabolism for maintaining vision, the RPE has robust macroautophagy/autophagy, and mitochondrial and antioxidant networks. However, the autophagy subtype, mitophagy, in the RPE and AMD is understudied. Here, we found...

Additional file 1. Table S1. COVID-Specific Items and Scales. Table S2. Descriptive Statistics of Person-Reported Outcomes. Table S3. Unadjusted Group Comparisons on Person-Reported Outcomes. Table S4. Representativeness Checks. Table S5. Distribution of Covariates in the Matched Samples. Table S6. Comparison of Explained Variance by Demographics and COVID-specific Variables in Whole-Sample vs. Matched Cohort Analyses.

Mutations in the microtubule (MT)-binding protein doublecortin (DCX) or in the MT-based molecular motor dynein result in lissencephaly. However, a functional link between DCX and dynein has not been defined. Here, we demonstrate that DCX negatively regulates dynein-mediated retrograde transport by reducing dynein’s association with MTs and by disrupting the composition of the dynein motor complex. Previous work showed an increased binding of the adaptor protein C-Jun-amino-terminal kinase-interacting protein 3 (JIP3) to dynein in the...

Additional file 4: Table S2. Gene expression clustering

A tectonic switch from subduction to collision and/or arc–arc collision is a key issue for understanding accretionary orogenic processes. We present new U-Pb ages, geochemistry, whole-rock Nd and zircon Hf isotope data for a suite of late Carboniferous intrusive rocks along the Kalamaili suture zone of the southwestern Central Asian Orogenic Belt (CAOB) and demonstrate their petrogenesis and the transition of their tectonic settings. Zircon U-Pb dating for the gabbros, diorites, granodiorites, and monzogranites yields...

To analyze the long-term trends in pollen counts and asthma-related emergency department visits (AREDV) in adult and pediatric populations in the Bronx. Daily values of adult and pediatric AREDV were retrospectively obtained from three major Bronx hospitals using ICD-10 codes and pollen counts were obtained from the Armonk station from 2001–2020. Wilcoxon Ranked Sum was applied to compare median values, while Spearman correlation was employed to examine the association between these variables, for both decades...

Additional file 2. Protein Coding Time-course analysis

Additional file 2. Protein Coding Time-course analysis

Additional file 5: Table 3. Proteome of HepG2/C3A spheroids and flat cells

Additional file 5: Table 3. Proteome of HepG2/C3A spheroids and flat cells

Additional file 1: Supplementary Spreadsheets and Figures. All spreadsheets for marker genes contain the following columns: p-value (pval), average log2 fold-change (avg_log2FC), percent of cells in the cluster expressing the marker (pct.1), percent of cells outside the cluster expressing the marker (pct.2), the multiple test corrected p-value (p_val_adj), the cluster number (cluster), the gene name (gene), the flybase id (Fbgn_ID), gene long name (GeneName), datestamp of flybase snapshot inclusion (datestamp) and the Flybase gene snapshot...

Additional file 1: Supplementary Table 1. Predictors of RFS, DFS, and OS in Cox proportional hazards models. Adjusted models are adjusted for all other covariates shown here. Supplementary Table 2. Association of richness and the Shannon diversity index with RFS, DFS, and OS in Cox proportional hazards models. Analyses were performed on the tumor tissue microbiome data and normal tissue microbiome data. Adjusted models are adjusted for age, sex, race, histology, smoking, and chemotherapy. Supplementary...