Find research datasets worth reusing

TMEM97 is correlated with the clinical features and clinical prognosis, and acts as a potential marker of multiple myeloma

Abstract Background: TMEM97 has been proven to be involved in many biological processes of malignancies. This study was designed to investigate the role of TMEM97 in multiple myeloma progression and clinical features and prognosis. We also predicted the potential mechanism of TMEM97 in MM prognosis. Methods: In the present study, five GEO datasets including GSE24080, GSE13591, GSE2113, GSE19784 and GSE2658 were obtained from the National Cancer for Biotechnology Information database for analysis of TMEM97 expression and clinical features and prognosis in MM.We performed GSEA analysis to investigate the potential mechanism of TMEM97 in MM. Results: We collected multiple myeloma data based on GEO datasets, and demonstrated the expression level of TMEM97 increased with the progression of multiple myeloma. Also the expression level of TMEM97 was correlated significantly with ISS stage in MM patients.Additionally, TMEM97 was more likely to be associated with important factors of MM prognosis, such as cytogenetic, B2M, CRP, LDH, BMPC, MRI and HGB. The multivariate analysis showed that TMEM97 was an independent factor for OS and EFS. In addition, top positively correlated genes with TMEM97 covered PUS7, GGCT, PFAS, CTPS1, RFC4 and PRMT3. Conclusion:The expression of TMEM97 was a factor affecting the survival and prognosis of MM patients. TMEM97 may be an important prognosis biomarker and promising therapeutic target in multiple myeloma.

Resident self-tissue of proinflammatory cytokines rather than their systemic levels correlates with development of myelofibrosis in Gata1low mice

Movie 1: tridimensional image of GFP localization in the nucleus Movie 2: tridimensional image of GFP localization in the cytoplasm Movie 3: tridimensional reconstruction of GFPpositive cells localized around an adipocyte

Cosmological constraints from the tomographic cross-correlation of DESI Luminous Red Galaxies and Planck CMB lensing

Input maps and derived data for the DESI LRG samples, cross-correlated with the Planck CMB lensing maps, from Cosmological constraints from the tomographic cross-correlation of DESI Luminous Red Galaxies and Planck CMB lensing Martin White, et al. https://arxiv.org/abs/2111.09898

opencc-zeroJan 2022View details →

Data from: Fusobacterium nucleatum and Bacteroides fragilis detection in colorectal tumours: optimal target site and correlation with total bacterial load

These data were generated to investigate detection of Fusobacterium nucleatum (F. nucleatum) and Bacteroides fragilis (B. fragilis) across different regions of human colorectal tumours. Relative abundance of each species in DNA extracted for clinical molecular mutation testing from formalin-fixed, paraffin-embedded (FFPE) tumour samples from 42 patients was assessed using targeted real-time PCR quantitative (qPCR) (the screening cohort). DNA was then freshly extracted from specific regions of tumours testing positive for one or both species (n = 20) and from 31 additional patients, and relative abundance of each species assessed using qPCR (site investigation cohort). Total bacterial load at the tumour luminal surface (where F. nucleatum and B. fragilis were most frequently detected) was also assessed by qPCR using primers targeting amplification of 16S rRNA. 16S sequencing was performed on tumour luminal surface DNA samples from five patients as an orthogonal method to confirm the ability to detect the targeted species by qPCR.

Quantitative Evaluation of COVID-19 Pneumonia Lung Extension by Specific Software and Correlation with Patient Clinical Outcome

Quantitative Evaluation of COVID-19 Pneumonia Lung Extension by Specific Software and Correlation with Patient Clinical Outcome Dataset regarding lung extension of covid 19

opencc-zeroJan 2022View details →

Continuous glucose monitoring in cystic fibrosis: glycemic relationships, clinical correlations, and implications for CFRD diagnosis

Context: The clinical utility and implications of continuous glucose monitoring (CGM) in cystic fibrosis (CF) are unclear. Objective: We examined the correlation between CGM measures and clinical outcomes in adults with CF, investigated the relationship between hemoglobin A1c (HbA1c) and CGM-derived average glucose (AG), and explored CGM measures that distinguish cystic fibrosis–related diabetes (CFRD) from normal and abnormal glucose tolerance. Methods: This prospective observational study included 77 adults with CF who had CGM and HbA1c measured at 2 to 3 time points 3 months apart. Results: Thirty-one of the 77 participants met American Diabetes Association–recommended diagnostic criteria for CFRD by oral glucose tolerance testing and/or HbA1c. In all participants, CGM measures of hyperglycemia and glycemic variability correlated with nutritional status and pulmonary function. HbA1c was correlated with AG (R2 = 0.71, P < 0.001), with no significant difference between this regression line and that previously established in type 1 and type 2 diabetes and healthy volunteers. Cutoffs of 17.5% time > 140 mg/dL and 3.4% time > 180 mg/dL had sensitivities of 87% and 90%, respectively, and specificities of 95%, for identifying CFRD. Area under the curve and percent of participants correctly classified with CFRD were higher for AG, SD, % time > 140, > 180, and > 250 mg/dL than for HbA1c. Conclusion: CGM measures of hyperglycemia and glycemic variability are superior to HbA1c in distinguishing those with and without CFRD. CGM-derived AG is strongly correlated with HbA1c in adults with CF, with a similar relationship to other diabetes populations. Future studies are needed to investigate CGM as a diagnostic and screening tool for CFRD.

Data set for "Intertwined spin, charge, and pair correlations in the two-dimensional Hubbard model in the thermodynamic limit"

This data set is for the paper "Intertwined spin, charge, and pair correlations in the two-dimensional Hubbard model in the thermodynamic limit". It contains the raw DCA HD5 and DQMC plain text output files, as well as the scripts and final processed data used to generate figures 1-5 of the main text and supplementary figures 1-12. Copies of the figures and latex files are also included for completeness.

Resident self-tissue of proinflammatory cytokines rather than their systemic levels correlates with development of myelofibrosis in Gata1low mice

Figure S1. Gating used to identify endothelial cells (ECs), mesenchymal cells (MSCs), osteoblasts (OBCs), megakaryocytes (MKs) and neutrophils (Neu) in the bone marrow from a wild type mouse. In order to correctly estimate the frequency of all the cell populations, the monocellular cell suspension used for the analyses were prepared by carefully crushing the femurs of the mice (see [34] and [35] for detail).  Figure S2. (A) Example of the computer assisted image analysis used to quantify the level of fibrosis in bone marrow sections stained by Reticulin (black fibers) from representative wild-type (WT) and Gata1low mice. The ImageJ program-assisted quantification process includes selection of the color channel (black histogram, Hue), determination of the threshold (Saturation histogram) and quantification of the areas which exceed the threshold (in %) (Brightness histogram). (B) Example of the computer assisted image analysis used to quantify the number of megakaryocytes positive per CXCR1 in in bone marrow sections from wild-type (WT) and Gata1low mice. In this case, the conditions to quantify the signal in wild-type and Gata1low mice were set separately. The ImageJ program-assisted quantification process includes selection of the cell type, determination of the threshold per cell (Saturation histogram) and quantification of the number of cells which exceed the threshold (Brightness histogram). Magnification 40x. Figure S3. Levels of the proinflammatory cytokines TGF-β1 (A), LCN2 (B) and CXCL1 (C) detected in the sera from wild-type, Pselnull and Gata1lowPselnull mice (all in the CD1 background). The levels of TGF-β1 in Gata1low mice were previously reported [33] and are presented as median values from 20 mice as horizontal green line for comparison. Values are presented divided by gender (M, males; F, females) and age (adult and old). P values were calculated with Turkey’s multiple comparison test and are summarized either on the right or in Table S1. The number of mice analyzed in each experimental group is indicated by n.  Figure S4. Serum levels of pro-inflammatory cytokines (TGF-β1, upper panel; LCN2, middle panel; CXCL1, bottom panel) detected in CD1, C57BL/6 and DBA/2 mice. Gender (M, males; F, females) and age (adult and old) were analyzed as independent variables. The number of mice analyzed in each experimental group is indicated by n. Significant p values calculated with multiple comparison performed separately among groups from each different genotype are indicated in the graph. P values obtained with Turkey’s multiple comparison test among all groups are summarized in supplementary Tables S2-S4.  Figure S5. Hematoxylin/Eosin (H&E) and reticulin staining and TGF-β1, LCN2 and CXCL1 immunostaining of bone marrow sections from representative wild-type (WT) and Gata1low littermates showing the fibrosis and increased cytokine bioavailability in the microenvironment of the mutant mice. Results are representative of those observed in 12-month old mice randomly selected from male and female, at least were analyzed 6 mice each staining. The arrows indicate individual megakaryocytes in wild-type mice and megakaryocyte clusters in Gata1low mice. Magnification 40x. Similar results were previously published in Dunbar et al, 2021[11]. Figure S6. Immunohistochemical staining with (P+S) and without (S) the primary antibodies of consecutive sections from the bone marrow of WT and Gata1low mice showing the specificity of the staining with the primary antibodies.  Figure S7. The bone marrow from Gata1low mice contain great levels of CXCR1. High levels of CXCR1 and CXCR2 in bone marrow sections from Gata1low mice. A) Representative sections from the bone marrow of wild-type and Gata1low littermates immunostained with antibodies per CXCR1 and CXCR2. Magnification 40x. B) Computer assisted quantification of the content of the CXCR1 and CXCR2 in 5 randomly selected areas per femur from three-four mice per experimental group. Statistical analysis was done by t-test and statistically significant p values among groups are indicated within the panels. Similar results were reported in Dunbar et al[11]. Figure S8. (A) Median optical slice of a confocal stack microscopy obtained with a 63x objective. The blue arrow indicates a GFP signal present inside nucleus (shown as tridimensional image in movie 1), whereas the red arrow indicates a cell were the GFP signal is localized in the cytoplasm (shown as tridimensional image in movie 2). DAPI and GFP signals are shown separately and combined. B) Hematoxylin-eosin staining (left) and fluorescent microscopy (right) of two representative sections from the bone marrow of one huCD34-GFPH2B mouse. The GFP staining labels either the nuclear areas of cells with small size (1, 2 and 3) or, very rarely, the cytoplasm of large cells (4), possibly macrophages. Slides were counter stained with DAPI. Magnification 40x.

opencc-by-4.0Feb 2022View details →

CORRELATION BETWEEN MEAT MARKET AND ARTIFICIAL INTELLIGENCE BEFORE AND DURING PANDEMIC

This is the dataset contains CSV file from Scopus, image processed from R studio and Vosviewer

Figure 10 in Presence of populations of antlions (Neuroptera: Myrmeleontidae) in Denmark correlates with presence of aeolian sand

Figure 10. Localities with antlion larvae mapped on excerpts of surface geology map of Denmark. a). Skaw Spit. b). Northern Zealand. c). LaesØ. d). Southern Falster. e). Bornholm. Maps extracted from Surface Geology Map of Denmark 1:200000, version 2 (2011), published by Geological Survey of Denmark and Greenland (GEUS). Downloaded from https://frisbee.geus.dk/geuswebshop/index.xhtml.

Figure 7 in Presence of populations of antlions (Neuroptera: Myrmeleontidae) in Denmark correlates with presence of aeolian sand

Figure 7. Distribution of Myrmeleon formicarius in Denmark. Number of records in circles. a. Overall distribution. b. Detailed distribution in northern Zealand.

Figure 8 in Presence of populations of antlions (Neuroptera: Myrmeleontidae) in Denmark correlates with presence of aeolian sand

Figure 8. Distribution of Myrmeleon bore in Denmark. Number of records in circles. a). Overall distribution. b). Detailed distribution on Skaw Spit and LaesØ. c). Detailed distribution on Bornholm.

Figure 3 in Presence of populations of antlions (Neuroptera: Myrmeleontidae) in Denmark correlates with presence of aeolian sand

Figure 3. Myrmeleon spp., adults (NHMD). Scales = 1 cm. a, b). Myrmeleon formicarius (Linnaeus, 1767). c, d). Myrmeleon bore (Tjeder, 1941), male. Red arrow = bright spot on pronotum. Green arrow = Eltringham's organ.

Figure 1 in Presence of populations of antlions (Neuroptera: Myrmeleontidae) in Denmark correlates with presence of aeolian sand

Figure 1. Euroleon nostras (Geoffroy in Fourcroy, 1785), collected in the summer 2020 on Bornholm. a). Pupa. b). Larva. c). Adult. Not to scale. Live images by Line Kraemer/Bugdex.

opencc-zeroMar 2022View details →

Data and code from: Correlates of individual participation in boundary patrols by male chimpanzees

Group territory defense poses a collective action problem: individuals can free-ride, benefiting without paying the costs. Individual heterogeneity has been proposed to solve such problems, as individuals high in reproductive success, rank, fighting ability, or motivation may benefit from defending territories even if others free-ride. To test this hypothesis, we analyzed 30 years of data from chimpanzees (Pan troglodytes) in the Kasekela community, Gombe National Park, Tanzania (1978-2007). We examined the extent to which individual participation in patrols varied according to correlates of reproductive success (mating rate, rank, age), fighting ability (hunting), motivation (scores from personality ratings), costs of defecting (the number of adult males in the community), and gregariousness (sighting frequency). In contrast to expectations from collective action theory, males participated in patrols at consistently high rates (mean ± S.D. = 74.5 ± 11.1% of patrols, n=23 males). The best predictors of patrol participation were sighting frequency, age, and hunting participation. Current and former alpha males did not participate at a higher rate than males that never achieved alpha status. These findings suggest that the temptation to free-ride is low, and that a mutualistic mechanism such as group augmentation may better explain individual participation in group territorial behavior.

opencc-zeroMar 2022View details →

Diversification and phylogenetic correlation of functional traits for co-occurring understory species in the Chinese boreal forest

Functional traits impact species interactions, community composition, and ecosystem functioning. However, few studies have focused on the diversification and phylogenetic correlation of multiple functional traits over geological time. We conducted phylogenetic comparative analysis for boreal forest understory species in northeast China to examine the diversification and phylogenetic correlation in several functional traits: leaf area (LA), leaf carbon content (LCC), leaf dry matter content (LDMC), leaf nitrogen content (LNC), plant height (PH), and specific leaf area (SLA). Phylogenetic signals showed that there were very low levels of phylogenetic niche conservatism (PNC) in understory leaf-related traits and plant height, suggesting divergence of functional traits for the co-occurring understory species. The disparity through time analyses (DTT) indicated that trait disparities mainly originated during recent divergence events and there were no differences in the observed trait disparities compared to that expected under Brownian motion. Furthermore, we found both positive and negative phylogenetic correlations among the measured functional traits. The very low levels of PNC suggests that these functional traits diverged among co-occurring understory species, and that those species are distantly phylogenetically related. The phylogenetic correlations among traits maybe caused by both positively and negatively correlated adaptions which correspond to resource acquisition strategies. This study provides evidence that divergence in functional traits may reflect understory adaptations to boreal conditions.

opencc-zeroMar 2022View details →

Dataset from: Diversity of European habitat types is correlated with geography more than climate and human pressure

We generated this dataframe to model EU habitat richness at continental scale as a function of geographical, climate and anthropogenic variables (please, see Material and Method section in the published paper version for all the details). We found geographical variables were by far the most strongly correlated with habitat richness, followed by climate. However, anthropogenic variables gained importance when consindering their interactions, with important implications for conservation planning.

opencc-by-4.0Mar 2022View details →

Acoustic correlates of stress in 16 Australian languages [R Markdown]

R Markdown with regression model results investigating the acoustic correlates of stress in 16 Indigenous Languages of Australia. Published as supplementary material to the author's dissertation, "Archival Phonetics & Prosodic Typology in Sixteen Australian Languages," 2022.

opencc-by-4.0Nov 2021View details →

data for Thermodynamics of correlated electrons in a magnetic field

DQMC data and Jupyter/Python data analysis scripts