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7,228 results for “Modules”
Data - "Suppressing feedback signals to visual cortex abolishes attentional modulation"
<p>Data associated with article "Suppressing feedback signals to visual cortex abolishes attentional modulation"</p>
Dataset related to the publication "Recent advances in Fabry-Perot-based refractometry utilizing gas modulation for assessment of pressureDataset related to the publication"
<p>The data set consists of; The published paper, all figures that present measurement or simulation data in .png and .fig format and the underlying data plotted in the figures in text format. The published plots were generated from the fig files. The text files were generated by reading the plotted data from the fig files. The files are named Fig_XX were XX corresponds to the figure number in the publication. The format of the text file is as follows. Before every data set there is a header consisting of; The number of the subplot where the data is plotted (Plot: XX), the number of the data set in the sub plot (DataSet: XX), and the color of the line or marker in the plot (Color: XX). The description of what each color represents can be found in the publication.</p>
Dataset related to the publication "Optical realization of the pascal - Characterization of two gas modulated refractometers"
<p>The data set consists of; The published paper, all figures that present measurement or simulation data in .png and .fig format and the underlying data plotted in the figures in text format. The published plots were generated from the fig files. The text files were generated by reading the plotted data from the fig files. The files are named Fig_XX were XX corresponds to the figure number in the publication. The format of the text file is as follows. Before every data set there is a header consisting of; The number of the subplot where the data is plotted (Plot: XX), the number of the data set in the sub plot (DataSet: XX), and the color of the line or marker in the plot (Color: XX). The description of what each color represents can be found in the publication.</p>
Dataset related to the publication "Ability of gas modulation to reduce the pickup of drifts in refractometry"
<p>The data set consists of; The published paper, all figures that present measurement or simulation data in .png and .fig format and the underlying data plotted in the figures in text format. The published plots were generated from the fig files. The text files were generated by reading the plotted data from the fig files. The files are named Fig_XX were XX corresponds to the figure number in the publication. The format of the text file is as follows. Before every data set there is a header consisting of; The number of the subplot where the data is plotted (Plot: XX), the number of the data set in the sub plot (DataSet: XX), and the color of the line or marker in the plot (Color: XX). The description of what each color represents can be found in the publication.</p>
Dataset related to the publication "The Short-Term Performances of Two Independent Gas Modulated Refractometers for Pressure Assessments"
<p>The data set consists of; The published paper, all figures that present measurement or simulation data in .png and .fig format and the underlying data plotted in the figures in text format. The published plots were generated from the fig files. The text files were generated by reading the plotted data from the fig files. The files are named Fig_XX were XX corresponds to the figure number in the publication. The format of the text file is as follows. Before every data set there is a header consisting of; The number of the subplot where the data is plotted (Plot: XX), the number of the data set in the sub plot (DataSet: XX), and the color of the line or marker in the plot (Color: XX). The description of what each color represents can be found in the publication.</p>
Numerical data from: Gasotransmitter modulation of hypoglossal motoneuron activity
<p>Using the rhythmic brainstem slice preparation, which contains the preBötzinger complex (preBötC) and the hypoglossal nucleus, we tested the hypothesis that central HO-2 dysregulation weakens hypoglossal motoneuron output. Disrupting HO-2 activity increased transmission failure as determined by the intermittent inability of the preBötC rhythm to trigger output from the hypoglossal nucleus. Failed transmission was associated with a reduced input-output relationship between the preBötC and the motor nucleus. These network phenomena were related to smaller inspiratory drive currents and reduced intrinsic excitability among hypoglossal neurons. In addition to HO-2, hypoglossal neurons also expressed the CO-regulated H2S producing enzyme cystathionine ϒ-lyase (CSE). H2S abundance was higher in hypoglossal neurons of HO-2 null mice than wild-type controls. Disrupting CSE function normalized transmission in HO-2 null mice and an H2S donor mimicked the effects of HO-2 dysregulation. These findings demonstrate a hitherto uncharacterized modulation of hypoglossal activity through the interaction of HO‑2 and CSE-derived H2S, and supports the perspective that centrally derived HO-2 activity plays an important role regulating upper airway control. This archived dataset contains the numerical data used to generate the figures in the preprint titled: Gasotransmitter Modulation of Hypoglossal Motoneuron Activity by Brigitte Browe, Ying-Jie Peng, Jayasri Nanduri, Nanduri R. Prabhakar, and Alfredo J. Garcia III. This report can be found at <a href="https://www.biorxiv.org/content/10.1101/2022.03.23.485481">https://www.biorxiv.org/content/10.1101/2022.03.23.485481</a>. </p>
The EGFR signaling modulates in mesenchymal stem cells the expression of miRNAs involved in the interaction with breast cancer cells
<p>We previously demonstrated that the epidermal growth factor receptor (EGFR) modulates in mesenchymal stem cells (MSCs) the expression of a number of genes coding for secreted proteins that promote breast cancer progression. However, the role of the EGFR in modulating in MSCs the expression of miRNAs potentially involved in the progression of breast cancer remains largely unexplored. Following small RNA-sequencing, we identified 36 miRNAs differentially expressed between MSCs untreated or treated with the EGFR ligand transforming growth factor α (TGFα), with a fold change (FC) <0.56 or FC ≥1.90 (CI, 95%). KEGG analysis revealed a significant enrichment in signaling pathways involved in cancer development and progression. EGFR activation in MSCs downregulated the expression of different miRNAs, including miR-23c. EGFR signaling also reduced the secretion of miR-23c in conditioned medium from MSCs. Functional assays demonstrated that miR-23c acts as tumor suppressor in basal/claudin-low MDA-MB-231 and MDA-MB-468 cells, through the repression of IL-6R. MiR-23c downregulation promoted cell proliferation, migration and invasion of these breast cancer cell lines. Collectively, our data suggested that the EGFR signaling regulates in MSCs the expression of miRNAs that might be involved in breast cancer progression, providing novel information on the mechanisms that regulate the MSC-tumor cell cross-talk.We previously demonstrated that the epidermal growth factor receptor (EGFR) modulates in mesenchymal stem cells (MSCs) the expression of a number of genes coding for secreted proteins that promote breast cancer progression. However, the role of the EGFR in modulating in MSCs the expression of miRNAs potentially involved in the progression of breast cancer remains largely unexplored. Following small RNA-sequencing, we identified 36 miRNAs differentially expressed between MSCs untreated or treated with the EGFR ligand transforming growth factor α (TGFα), with a fold change (FC) <0.56 or FC ≥1.90 (CI, 95%). KEGG analysis revealed a significant enrichment in signaling pathways involved in cancer development and progression. EGFR activation in MSCs downregulated the expression of different miRNAs, including miR-23c. EGFR signaling also reduced the secretion of miR-23c in conditioned medium from MSCs. Functional assays demonstrated that miR-23c acts as tumor suppressor in basal/claudin-low MDA-MB-231 and MDA-MB-468 cells, through the repression of IL-6R. MiR-23c downregulation promoted cell proliferation, migration and invasion of these breast cancer cell lines. Collectively, our data suggested that the EGFR signaling regulates in MSCs the expression of miRNAs that might be involved in breast cancer progression, providing novel information on the mechanisms that regulate the MSC-tumor cell cross-talk.</p>
Framework for virtual education of COVID-19 vaccines for Mandarin-speaking learners: An educational intervention module
<p><strong>Background</strong>: In the United States, patients with limited English proficiency face significant barriers to comprehending and acting upon health-related information, particularly during the COVID-19 pandemic. The ability of health professionals to communicate COVID-19-related information to Mandarin-speaking patients has proved critical in discussions about vaccine efficacy, side effects, and post-vaccine protection.</p> <p><strong>Methods</strong>: The authors created a one-hour educational module to help Mandarin-speaking medical students better convey COVID-19 vaccine information to Mandarin-only speakers. The module is composed of an educational guide, which introduced key terminology and addressed commonly asked questions, and pre- and post-surveys. The authors recruited 59 Mandarin-speaking medical students from 31 U.S. academic medical centers, all of whom had previously completed a medical Mandarin elective. The module and surveys were distributed and completed in August 2021. Data analysis measured the change in aggregate mean for subjective five-point Likert-scale questions and change in percent accuracy for objective knowledge-based questions.</p> <p><strong>Results</strong>: The educational module significantly improved participants' subjective comfort level in discussing the COVID-19 vaccine in English and Mandarin. The largest improvement in both English and Mandarin was demonstrated in the participant's ability to explain differences between the COVID-19 vaccines, with an aggregate mean improvement of 0.39 for English and 1.48 for Mandarin. Survey respondents also demonstrated increased percent accuracy in knowledge-based objective questions in Mandarin.</p> <p><strong>Conclusions</strong>: This module provides Mandarin-learning medical students with skills to deliver reliable information to the general population and acts as a model for the continued development of educational modules for multilingual medical professionals.</p>
Precise modulation of transcription factor levels identifies features underlying dosage sensitivity
<p><strong>Processed data and code for "Precise modulation of transcription factor levels reveals drivers of dosage sensitivity," Naqvi et al 2022.</strong></p> <p><strong>Count/expression data</strong></p> <ul> <li>all.sub.150bpclust.greater2.500bp.merge.ATAC.counts.fulldep.3h.24h.txt.gz - ATAC-seq counts from all samples (SOX9 titration and depletion) over all reproducible ATAC-seq peak regions</li> <li>all.sub.150bpclust.greater2.500bp.merge.k27ac.txt.gz - H3K27ac ChIP-seq counts from SOX9 depletion samples over all reproducible peak regions</li> <li>all.sub.150bpclust.greater2.500bp.merge.SOX9titr.V5.counts.txt.gz - V5 (SOX9) ChIP-seq counts from partial SOX9 titration (100%, 60%, 30%, 0%) over all reproducible peak regions</li> <li>all.sub.150bpclust.greater2.500bp.merge.SOX9titr.TWIST1.in.counts.tab.txt.gz - TWIST1 and input ChIP-seq counts from partial SOX9 titration (100%, 60%, 30%, 0%) over all reproducible peak regions</li> <li>rna.salmon.7rep.txi.counts.txt.gz - RNA-seq counts from SOX9 titration samples </li> <li>rna.salmon.7rep.txi.abundance.txt.gz - RNA-seq TPM values from SOX9 titration samples </li> <li>slam.tcreadcount.txt.gz - SLAM-seq T-C conversion-containing read counts (representing newly transcribed mRNAs) from SOX9 depletion samples</li> <li>slam.readcount.txt.gz - SLAM-seq read counts (representing all mRNAs) from SOX9 depletion samples</li> </ul> <p><strong>Metadata</strong></p> <ul> <li>all.protcod.gene.features.txt.gz - Features of interest for all protein-coding genes</li> <li>all.sub.150bpclust.greater2.500bp.merge.features.txt.gz - Features of interest for all reproducible peak regions</li> <li>atac_depletion_3h_24h_design.txt - design matrix for ATAC-seq SOX9 depletion samples</li> <li>atac_titration_48h_design.txt - design matrix for ATAC-seq SOX9 titration samples</li> <li>Homo_sapiens.GRCh38.cdna.all.txid2gene.id.symbol.type.txt.gz - Ensembl transcript types (for filtering to protein-coding genes in various analyses)</li> <li>k27_depletion_3h_24h_design.txt - design matrix for H3K27ac ChIP-seq SOX9 depletion samples</li> <li>v5_sox9titration_design.txt - design matrix for V5 (SOX9) ChIP-seq SOX9 partial titration samples</li> <li>twist1_sox9titration_design.txt - design matrix for TWIST1 ChIP-seq SOX9 partial titration samples</li> <li>rna_titration_48h_design.txt - design matrix for RNA-seq SOX9 titration samples</li> <li>slam_depletion_3h_24h_design.txt - design matrix for SLAM-seq SOX9 depletion samples</li> <li>facialgwas_snpia_ld0.5.hg38.bed - SNPs in LD (r2 > 0.5) with any of the facial GWAS lead SNPs in Supplementary Table 2 of Naqvi, Hoskens, et al, Annu Rev. Hum Genet. Genom. 2022. </li> <li>facialgwas_prsendo_7e5_either_snpia_ld0.5.hg38.bed - SNPs in LD (r2 > 0.5) with the subset of the same facial GWAS SNPs that show significant (p-value < 7e-05, ~corresponding to Bonferonni-corrected p-value of 0.01) association with the PRS endophenotype GWAS in either US or UK cohort. </li> </ul> <p><strong>Scripts</strong></p> <ul> <li>atac_deseq_fitmodels_bs_parallel.R - R code for fitting bootstrapped Hill equations to all SOX9-dependent REs (computationally intensive, so has been coded for parallelization over multiple cores) <ul> <li>Input: all.sub.150bpclust.greater2.500bp.merge.ATAC.counts.fulldep.3h.24h.txt.gz, atac_titration_48h_design.txt</li> <li>Output: enh_linear_sig_aic_bsmat.txt, enh_linear_sig_aic_bsmat_enhind.txt</li> </ul> </li> <li>atac_deseq_fitmodels.R - R code for fitting Hill equations (no bootstrap) to all SOX9-dependent REs <ul> <li>Input: all.sub.150bpclust.greater2.500bp.merge.ATAC.counts.fulldep.3h.24h.txt.gz, atac_titration_48h_design.txt</li> <li>Output: enh_linear_sig_aic.rds</li> </ul> </li> <li>atac_k27_depletion_deseq.R - R code for DESeq2 analysis of ATAC and H3K27ac ChIP SOX9 depletion (3h and 24h) <ul> <li>Input: all.sub.150bpclust.greater2.500bp.merge.ATAC.counts.fulldep.3h.24h.txt.gz, all.sub.150bpclust.greater2.500bp.merge.k27ac.txt.gz, atac_depletion_3h_24h_design.txt</li> <li>Output: atac_depletion_3h_24h_deseq.txt, k27_depletion_3h_24h_deseq.txt </li> </ul> </li> <li>v5_twist1_sox9titration_deseq.R - R code for DESeq2 analysis of V5 (SOX9) and TWIST1 ChIP in partial SOX9 titration (100%, 60%, 30%, 0%) <ul> <li>Input: all.sub.150bpclust.greater2.500bp.merge.SOX9titr.V5.counts.txt.gz, all.sub.150bpclust.greater2.500bp.merge.SOX9titr.TWIST1.in.counts.tab.txt.gz, v5_sox9titration_design.txt, twist1_sox9titration_design.txt</li> <li>Output: v5_sox9titration_deseq.txt, twist1_sox9titration_deseq.txt </li> </ul> </li> <li>drm.R - Modified version of code from drc() package to prevent errors, install drc() with this version to avoid errors</li> <li>group_comparisons.Rmd - R code to compare computed parameters (i.e. ED50, Hill) between sets of REs/genes utilizing bootstrap information <ul> <li>Input: enh_linear_sig_aic_bsmat_enhind.txt, enh_linear_sig_aic_bsmat.txt.gz, enh_linear_sig_aic.rds, gene_linear_sig_aic_bsmat_enhind.txt, gene_linear_sig_aic_bsmat.txt.gz, gene_linear_sig_aic.rds, all.sub.150bpclust.greater2.500bp.merge.features.txt.gz, all.protcod.gene.features.txt.gz</li> <li>Uses: summarize_bs_helper.R</li> </ul> </li> <li>plot_re_gene_fits.Rmd - R code for plotting individual RE/gene counts and Hill/linear fits <ul> <li>Input: all.sub.150bpclust.greater2.500bp.merge.ATAC.counts.fulldep.3h.24h.txt.gz, atac_titration_48h_design.txt, rna.salmon.7rep.txi.counts.txt.gz, rna.salmon.7rep.txi.abundance.txt.gz, rna_titration_48h_design.txt</li> </ul> </li> <li>rna_deseq_fitmodels_bs_parallel.R - R code for fitting bootstrapped Hill equations to all SOX9-dependent genes (computationally intensive, so has been coded for parallelization over multiple cores) <ul> <li>Input: rna.salmon.7rep.txi.counts.txt.gz, rna.salmon.7rep.txi.abundance.txt.gz, rna_titration_48h_design.txt</li> <li>Output: gene_linear_sig_aic_bsmat.txt, gene_linear_sig_aic_bsmat_enhind.txt</li> </ul> </li> <li>rna_deseq_fitmodels.R - R code for fitting Hill equations (no bootstrap) to all SOX9-dependent genes <ul> <li>Input: rna.salmon.7rep.txi.counts.txt.gz, rna.salmon.7rep.txi.abundance.txt.gz, rna_titration_48h_design.txt</li> <li>Output: gene_linear_sig_aic.rds</li> </ul> </li> <li>slam_depletion_deseq.R - R code for DESeq2/sva analysis of SLAM-seq SOX9 depletion (3h and 24h) <ul> <li>Input: slam.tcreadcount.txt.gz, slam_depletion_3h_24h_design.txt</li> <li>Output: slam_depletion_3h_24h_deseq.txt</li> </ul> </li> <li>summarize_bs_helper.R - Helper functions for group_comparisons.Rmd</li> </ul> <p><strong>Intermediate/output files (some files are gzipped to save space, the Rscripts that output them won't gzip but they expect gzipped input when indicated)</strong></p> <ul> <li>atac_depletion_3h_24h_deseq.txt.gz - DESeq2 output of ATAC SOX9 depletion (3h and 24h)</li> <li>enh_linear_sig_aic_bsmat_enhind.txt - index to name file for SOX9-dependent RE bootstrap output</li> <li>enh_linear_sig_aic_bsmat.txt.gz - SOX9-dependent RE bootstrap output</li> <li>enh_linear_sig_aic.rds - Parameters from Hill equation fit on all SOX9-dependent REs (no bootstrap) (RDS file)</li> <li>gene_linear_sig_aic_bsmat_enhind.txt - index to name file for SOX9-dependent gene bootstrap output</li> <li>gene_linear_sig_aic_bsmat.txt.gz - SOX9-dependent gene bootstrap output</li> <li>gene_linear_sig_aic.rds - Parameters from Hill equation fit on all SOX9-dependent gene (no bootstrap) (RDS file)</li> <li>k27_depletion_3h_24h_deseq.txt.gz - DESeq2 output of H3K27ac ChIP-seq SOX9 depletion (3h and 24h)</li> <li>slam_depletion_3h_24h_deseq.txt.gz - DESeq2 output of SLAM-seq SOX9 depletion (3h and 24h)</li> <li>v5_sox9titration_deseq.txt.gz - DESeq2 output of V5 (SOX9) ChIP-seq in partial SOX9 titration (100%, 60%, 30%, 0%)</li> <li>twist1_sox9titration_deseq.txt.gz - DESeq2 output of TWIS1 ChIP-seq in partial SOX9 titration (100%, 60%, 30%, 0%)</li> </ul> <p><strong>chromatin_predictions.tar.gz (self-contained folder for chromatin-based predictions of gene expression change) contains:</strong></p> <ul> <li>ABC_6conc.sh - Bash script to calculate predicted gene expression change based on ATAC-seq fold-change at each of five SOX9 concentrations (warning: creates a number of very large additional intermediate output files). Requires as input all files in this folder except for all.sub.150bpclust.greater2.500bp.merge.ABC.5Mb.power-0.7.norm.6conc.all.total.txt</li> <li><strong> </strong>all.sub.150bpclust.greater2.500bp.merge.ABC.5Mb.power-0.7.norm.6conc.all.total.txt - ATAC-based predicted fold-change of all genes each of five SOX9 concentrations (78, 52, 25, 8, 0, in that order), relative to 100% SOX9</li> <li>all.sub.150bpclust.greater2.500bp.merge.ATAC.DMSO.counts.txt - ATAC-seq counts over all reproducible peak regions in updepleted samples</li> <li>all.sub.150bpclust.greater2.500bp.merge.bed - bed file of all reproducible peak regions</li> <li>all.sub.150bpclust.greater2.500bp.merge.deseq.allconc.lfc.txt - DESeq2 output from ATAC SOX9 titration, comparing each lowered SOX9 concentration to 100% SOX9</li> <li>all.sub.150bpclust.greater2.500bp.merge.k27ac.dmso.counts.txt - H3K27ac ChIP-seq counts over all reproducible peak regions in updepleted samples</li> <li>hg38_refGene_TSS_collapsed.bed - collapsed TSSs for all genes</li> <li>hg38.genome - genome file</li> </ul> <p> </p>
Parasites as ecosystem modulators: Foliar pathogens suppress top-down effects of large herbivores
<p><span>Parasites can catalyze or inhibit interactions between their hosts and other species, but the ecosystem-level effects of such interaction modifications are poorly understood. We conducted a large-scale field experiment in temperate grasslands of northeastern China to understand how foliar fungal pathogens (e.g., rusts and leaf</span><span> spot</span><span>s</span><span>) influenced top-down effects of large herbivores (cattle; <em>Bos</em> <em>taurus</em>) on plant diversity and productivity. In the absence of foliar pathogens, cattle grazing strongly suppressed biomass of the dominant grass, <em>Leymus</em> <em>chinensis</em>, (↓56%), generating competitive release that significantly increased plant species richness (↑75%) and evenness (↑15%). In the absence of grazing, pathogen attack on <em>L. chinensis</em> had no measurable effect on host biomass. However, pathogen infection greatly weakened top-down effects of herbivory by inhibiting cattle grazing on <em>L. chinensis</em> and negating grazing effects on plant biomass and species richness. Mechanistically, foliar pathogens were linked to increased alkaloid (↑45%) and reduced nitrogen levels (↓19%) in leaf tissue that appeared to deter cattle grazing on<em> L. chinensis</em>. Our results demonstrate that foliar pathogens can suppress top-down effects of large herbivores on grassland community structure and function by modifying the strength of its host's interactions with the dominant consumer. We propose that parasites may function primarily as modulators of ecosystem function when their direct effects on host density (often dampened by evolution) are overshadowed by influences on host traits that modify host interactions with strong competitors, herbivores, or predators.</span></p>
Data from: Thermoregulatory costs of the innate immune response are modulated by winter food availability in a small passerine
<p>1. In winter, a challenge to the immune system could pose a major energetic trade-off for small endotherms, whereby increasing body temperature (<em>T</em><sub>b</sub>; i.e. eliciting fever) may be beneficial to fight off invading pathogens yet incur a cost for vital energy-saving mechanisms.</p> <p>2. Having previously shown that the availability and acquisition of energy, through manipulation of food predictability, influence the depth of rest-phase hypothermia in a wild bird in winter, we expected that the nocturnal thermoregulatory component of the acute-phase immune response would also be modulated by food availability.</p> <p>3. By manipulating winter food availability in the wild for great tits, <em>Parus major</em>, we created an area offering a "predictable" and constant supply of food at feeding stations, while an unmanipulated area was subject to naturally "unpredictable" food. Birds were subject to an immune challenge shortly after dusk, and the thermoregulatory response was quantified via continuous recording of nocturnal <em>T</em><sub>b</sub>, using subcutaneous thermo-sensitive transponders.</p> <p>4. In response to immune challenge, all birds increased <em>T</em><sub>b</sub> above the level maintained prior to immune challenge (i.e. baseline). However, birds experiencing a naturally unpredictable food supply elevated <em>T</em><sub>b</sub> more than birds with access to predictable food resources, during the period of expected peak response and for the duration of the night. Furthermore, "unpredictable-food" females took longer to return to baseline <em>T</em><sub>b</sub>. Assuming baseline nocturnal <em>T</em><sub>b</sub> reflects an individual's optimum, based on their available energy budget, the metabolic cost of eliciting an acute-phase response for "unpredictable-food" birds was more than double that of "predictable-food" birds. The absence of differences in absolute <em>T</em><sub>b</sub> during the peak response could support the idea of an optimal <em>T</em><sub>b</sub> for immune system activation. Alternatively, "predictable-food" birds could have acquired tolerance to endotoxin as a result of using feeding stations, thus affording them reduced costs associated with a smaller <em>T</em><sub>b</sub> increase.</p> <p>5. These findings shed new light on the trade-offs associated with food acquisition, thermoregulation and immune function in small-bodied endotherms. This knowledge is of increasing importance, given the predicted elevated pathogen risks associated with changes in climate and anthropogenic activities.</p>
Legacy effects of anthropogenic disturbances modulate dynamics in the world's coral reefs
<p>Rapidly changing conditions alter disturbance patterns, highlighting the need to better understand how the transition from pulse disturbances to more persistent stress will impact ecosystem dynamics. We conducted a global analysis of the impacts of eleven types of disturbances on reef integrity using the rate of change of coral cover as a measure of damage. Then, we evaluated how the magnitude of the damage due to thermal stress, cyclones, and diseases varied among tropical Atlantic and Indo-Pacific reefs and whether the cumulative impact of thermal stress and cyclones was able to modulate the responses of reefs to future events.</p> <p>We found that reef damage largely depends on the condition of a reef before a disturbance, disturbance intensity, and biogeographic region, regardless of the type of disturbance. Changes in coral cover after thermal stress events were largely influenced by the cumulative stress of past disturbances and did not depend on disturbance intensity or initial coral cover, which suggests that an ecological memory is present within coral communities. In contrast, the effect of cyclones (and likely other physical impacts) was primarily modulated by the initial reef condition and did not appear to be influenced by previous impacts.</p> <p>Our findings also underscore that coral reefs can recover if stressful conditions decrease, yet the lack of action to reduce anthropogenic impacts and greenhouse gas emissions continues to trigger reef degradation. We uphold that evidence-based strategies can guide managers to make better decisions to prepare for future disturbances.</p>
Data for: Nanotopography modulates intracellular excitable systems through cytoskeleton actuation
<p>Cellular sensing of most environmental cues involves receptors that affect a signal-transduction excitable network (STEN), which is coupled to a cytoskeletal excitable network (CEN). In this work, we monitored the dynamics of intracellular cytoskeleton and signaling transduction molecules in Dictyostelium discoideum plated on various nano-topographies. We show that the mechanism of sensing of nanoridges is fundamentally different. CEN activity occurs preferentially on nanoridges, whereas STEN activity is constrained between nanoridges. In the absence of STEN, waves disappear, but long-lasting F-actin puncta persist along the ridges. When CEN is suppressed, wave propagation is no longer constrained by nanoridges. A computational model reproduces these experimental observations. Our findings indicate that nanotopography is sensed directly by CEN, whereas STEN is only indirectly affected due to a CEN-STEN feedback loop. These results explain why texture sensing is robust, and acts cooperatively with multiple other guidance cues in complex microenvironments.</p>
Dataset of "Ultrafast Transverse Modulation of Free Electrons by Interaction with Shaped Optical Fields"
<p>This upload includes the experimentally measured and theoretically calculated energy-filtered electron spatial distributions and light profiles showing the electron beam modulation via transversely shaped light fields using an external spatial light modulator.</p>
Calorie restriction and pravastatin administration during pregnancy in obese rhesus macaques modulates maternal and infant metabolism and infant brain and behavioral development
<p>Maternal obesity has been associated with a higher risk of pregnancy-related complications in mothers and offspring; however, effective interventions have not yet been developed. We tested two common interventions, calorie restriction and pravastatin administration, during pregnancy in a rhesus macaque model with the hypothesis that these interventions would normalize metabolic dysregulation in pregnant mothers leading to an improvement in infant metabolic and cognitive/social development. A total of 19 obese mothers were assigned to either one of the two intervention groups (n=5 for calorie restriction; n=7 for pravastatin) or an obese control group (n=7) with no intervention, and maternal gestational samples and postnatal infant samples were compared with lean control mothers (n=6). Gestational calorie restriction normalized one-carbon metabolism dysregulation in obese mothers but altered energy metabolism in their offspring. Although administration of pravastatin during pregnancy tended to normalize blood cholesterol in the mothers, it potentially impacted the gut microbiome and kidney function of their offspring. In the offspring, both calorie restriction and pravastatin administration during pregnancy tended to normalize the activity of AMPK in the brain at 6 months, and while results of the Visual Paired-Comparison test, which measures infant recognition memory, were not significantly impacted by either of the interventions, gestational pravastatin administration, but not calorie restriction, tended to normalize anxiety assessed by the Human Intruder test. Although the two interventions tested in a non-human primate model led to some improvements in metabolism and/or infant brain development, negative impacts were also found in both mothers and infants. Our study emphasizes the importance of assessing gestational interventions for maternal obesity on both maternal and offspring long-term outcomes.</p>
Deliverable D6.2 "TOOL FOR PERFORMANCE ASSESSMENT"- USI Travellers, USI TSPs and Effectiveness V3 Module 5 Annex 8
<p>This file will introduce the USI Travellers, USI TSPs, and Effectiveness V3 Module 5 (Annex 8) in deliverable D6.2 "TOOL FOR PERFORMANCE ASSESSMENT".</p>
Deliverable D6.2 "TOOL FOR PERFORMANCE ASSESSMENT"- Regression Module 2 Annex 5
<p>This file will introduce the Regression analysis module 2 (Annex 5) in deliverable D6.2 "TOOL FOR PERFORMANCE ASSESSMENT".</p>
Deliverable D6.2 "TOOL FOR PERFORMANCE ASSESSMENT"- Anova Test Module 4 Annex 7
<p>This file will introduce the ANOVA test Module 4 (Annex 7) in deliverable D6.2 "TOOL FOR PERFORMANCE ASSESSMENT".</p>
Deliverable D6.2 "TOOL FOR PERFORMANCE ASSESSMENT"- AHP method_ Module 1_Annex 4
<p>This file will introduce the AHP method module 1 (Annex 4) in deliverable D6.2 "TOOL FOR PERFORMANCE ASSESSMENT".</p>
Raw data for: Crosstalk between regulatory elements in the disordered TRPV4 N-terminus modulates lipid-dependent channel activity
<p>This repository contains raw data and code related to "Crosstalk between regulatory elements in the disordered TRPV4 N-terminus modulates lipid-dependent channel activity" by Goretzki et al.</p> <p>Included are molecular dynamics parameter files, initial structures after system equilibration, production trajectories, and final structures of simulations of:<br> 1. coarse-grained IDRs on membrane, and force and position data for restrained c-termini. Trajectories are subsampled with one frame every 50 ns.<br> 2. The tetrameric TRPV4 core in a POPC in atomistic resolution. Trajectories are sampled with one frame every 1 ns. <br> 3. The isolated ARD in solution in atomistic resolution. Trajectories are subsampled with one frame every 1 ns.</p> <p>Contact information:<br> Name: Stefan L. Schaefer<br> Institution: Department of Theoretical Biophysics, Max Planck Institute of Biophysics<br> Address: Max-von-Laue-Str. 3, 60438 Frankfurt am Main, Germany<br> Email: stefan.schaefer@biophys.mpg.de</p> <p>Name: Ainara Claveras Cabezudo<br> Institution: Department of Theoretical Biophysics, Max Planck Institute of Biophysics<br> Address: Max-von-Laue-Str. 3, 60438 Frankfurt am Main, Germany<br> Email: ainara.claveras@biophys.mpg.de</p>
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Allen Brain Atlas
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
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OpenNeuro
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