AndreaBozzo/ceres-open-data-index huggingface dataset:
Bootstrap, Bayesian probability and maximum likelihood mapping: exploring new tools for comparative genome analyses

Background
          Horizontal gene transfer (HGT) played an important role in shaping microbial genomes. In addition to genes under sporadic selection, HGT also affects housekeeping genes and those involved in information processing, even ribosomal RNA encoding genes. Here we describe tools that provide an assessment and graphic illustration of the mosaic nature of microbial genomes.
        
        
          Results
          We adapted the Maximum Likelihood (ML) mapping to the analyses of all detected quartets of orthologous genes found in four genomes. We have automated the assembly and analyses of these quartets of orthologs given the selection of four genomes. We compared the ML-mapping approach to more rigorous Bayesian probability and Bootstrap mapping techniques. The latter two approaches appear to be more conservative than the ML-mapping approach, but qualitatively all three approaches give equivalent results. All three tools were tested on mitochondrial genomes, which presumably were inherited as a single linkage group.
        
        
          Conclusions
          In some instances of interphylum relationships we find nearly equal numbers of quartets strongly supporting the three possible topologies. In contrast, our analyses of genome quartets containing the cyanobacterium Synechocystis sp. indicate that a large part of the cyanobacterial genome is related to that of low GC Gram positives. Other groups that had been suggested as sister groups to the cyanobacteria contain many fewer genes that group with the Synechocystis orthologs. Interdomain comparisons of genome quartets containing the archaeon Halobacterium sp. revealed that Halobacterium sp. shares more genes with Bacteria that live in the same environment than with Bacteria that are more closely related based on rRNA phylogeny . Many of these genes encode proteins involved in substrate transport and metabolism and in information storage and processing. The performed analyses demonstrate that relationships among prokaryotes cannot be accurately depicted by or inferred from the tree-like evolution of a core of rarely transferred genes; rather prokaryotic genomes are mosaics in which different parts have different evolutionary histories. Probability mapping is a valuable tool to explore the mosaic nature of genomes.
Compound 526957: 2-Nitrophenyl-4-nitrophenylacetic acid, methyl ester

Chemical compound data from PubChem database. IUPAC Name: methyl 2-(2-nitrophenyl)-2-(4-nitrophenyl)acetate. Molecular Formula: C15H12N2O6. Molecular Weight: 316.26. This dataset contains comprehensive chemical information including structural data, physical properties, and biological activities. Useful for drug discovery, chemical research, and educational purposes.
p53 in rheumatoid arthritis: friend or foe?

The knowledge of transcription factors and proto-oncogenes has			 influenced the understanding of cell regulation, cell
        cycle, and apoptotic cell death in rheumatoid arthritis (RA)			 synovium. In addition, the development of normal synovial fibroblasts into			 transformed-appearing aggressive synovial fibroblasts may be triggered by the			 lack of antiproliferative factors, such as p53, p53-associated molecules, other			 tumor suppressors, as well as by upregulation of anti-apoptotic genes.			 Therefore, data derived from experiments such as those performed by Tak and			 colleagues in this issue of Arthritis Research not only enrich the			 intensive discussion addressing the impact of p53 on RA			 pathophysiology, they also may facilitate development of novel therapeutic			 approaches including p53-targeted gene therapy.
Patent AT-E401441-T1: [Translated] LEATHER COLLAGEN FIBER YARN AND METHOD THEREOF

A yarn of collagen fiber of animal leather and the manufacturing process thereof,  characterized in that  the yarn is made of 1-100 % by weight of collagen fiber of animal leather, and 0-99 % by weight of textile fiber. The yarn of collagen fiber is made by the following steps: choosing raw materials, loosing fiber, assorting, blending, carding, drawing, and twisting; if using rawhide, the above process should also add the steps of liming, washing, de-liming, tanning and dehydrating. The raw material for making of yarn can be rawhide of any animal, as well as any leather waste material or worn-out leather. The yarn has excellent properties, including high tensile strength, abrasion resistance, softness, water adsorption, oil adsorption, flame-retardation, and can be woven, knitted and braided. The yarn can be used to weave high quality fabric with high count and high strength for the four seasons, which greatly broadens the application field of animal leather, improves the utilization of the leather, and provides a spinnable fiber for the textile industry. The present invention can be widely used in textile industry.
Patent AT-E400403-T1: [Translated] MACHINING DEVICE WITH A CHANGE MODULE HAVING A WORKPIECE HOLDER AND A MACHINING TOOL

The machine for working workpieces containing plastics materials, e.g. welding or stamping or cutting and/or adhesive bonding, has loading and unloading stations to pass the workpieces (35) through the working space. An exchange module (15) is fitted into the working space, with a workpiece holder (34) and a working tool (37) according to a working program. The module is on running wheels with a common frame (16) to be moved in and out of the working space. The relative positions of the workpiece holder and the tool are set by the module.
Louisiana 2016 Potential Areas for Addressing Service Gaps for Opioid Treatment

The purpose of the medication-assisted treatment (MAT) facility maps is to identify areas on a state-by-state basis that may be potentially underserved by existing treatment facilities. The maps are created with a methodology that seeks to include the highest potential need areas from individual counties so that county-level stakeholders are also informed. The maps are meant to be used as a tool for policy makers to determine potentially underserved areas—not as a definitive representation of these areas.
Compound 529168: 1-Octadecanamine, mono-TMS

Chemical compound data from PubChem database. IUPAC Name: N-trimethylsilyloctadecan-1-amine. Molecular Formula: C21H47NSi. Molecular Weight: 341.7. This dataset contains comprehensive chemical information including structural data, physical properties, and biological activities. Useful for drug discovery, chemical research, and educational purposes.
NorWeST Stream Temperatures 1993-2011 (Feature Layer)

This layer represents modeled stream temperatures derived from the NorWeST point feature class (NorWest_TemperaturePoints). NorWeST summer stream temperature scenarios were developed for all rivers and streams in the western U.S. from the &gt; 20,000 stream sites in the NorWeST database where mean August stream temperatures were recorded. The resulting dataset includes stream lines (NorWeST_PredictedStreams) and associated mid-points NorWest_TemperaturePoints) representing 1 kilometer intervals along the stream network. Stream lines were derived from the 1:100,000 scale NHDPlus dataset (USEPA and USGS 2010; McKay et al. 2012). Shapefile extents correspond to NorWeST processing units, which generally relate to 6 digit (3rd code) hydrologic unit codes (HUCs) or in some instances closely correspond to state borders. The line and point shapefiles contain identical modeled stream temperature results. The two feature classes are meant to complement one another for use in different applications. In addition, spatial and temporal covariates used to generate the modeled temperatures are included in the attribute tables at https://www.fs.usda.gov/rm/boise/AWAE/projects/NorWeST/ModeledStreamTemperatureScenarioMaps.shtml. The NorWeST NHDPlusV1 processing units include: Salmon, Clearwater, Spokoot, Missouri Headwaters, Snake-Bear, MidSnake, MidColumbia, Oregon Coast, South-Central Oregon, Upper Columbia-Yakima, Washington Coast, Upper Yellowstone-Bighorn, Upper Missouri-Marias, and Upper Green-North Platte. The NorWeST NHDPlusV2 processing units include: Lahontan Basin, Northern California-Coastal Klamath, Utah, Coastal California, Central California, Colorado, New Mexico, Arizona, and Black Hills.
Title IV-E Programs Expenditure and Caseload Data 2019

The Children’s Bureau posts an annual FY summary of Form CB-496 expenditures and caseloads as reported by each title IV-E agency. These data tables include the combination of current-quarter and prior-quarter adjustment expenditures and current-quarter caseload data as delineated in quarterly Form CB-496 submissions for FY 2019.

Metadata-only record linking to the original dataset. Open original dataset below.
Helium-oxygen mixture does not improve gas exchange in mechanically ventilated children with bronchiolitis

Varying concentrations of helium-oxygen (heliox) mixtures were evaluated in mechanically ventilated children with bronchiolitis. We hypothesized that, with an increase in the helium:oxygen ratio, and therefore a decrease in gas density, ventilation and oxygenation would improve in children with bronchiolitis. Ten patients, aged 1-9 months, were mechanically ventilated in synchronized intermittent mandatory ventilation (SIMV) mode with the following gas mixtures delivered at 15-min intervals: 50%/50% nitrogen/oxygen, 50%/50% heliox, 60%/40% heliox, 70%/30% heliox, and return to 50%/50% nitrogen/oxygen. The use of different heliox mixtures compared with 50%/50% nitrogen/oxygen in mechanically ventilated children with bronchiolitis did not result in a significant or noticeable decrease in ventilation or oxygenation.
The effects of weather on fungal abundance and richness among 25 communities in the Intermountain West

Background
          Because moisture and temperature influence the growth of fungi, characterizing weather conditions favorable for fungi may be used to predict the abundance and richness of fungi in habitats with different climate conditions. To estimate habitat favorability to fungi, we examined the relationship of fungal abundance and species richness to various weather and environmental parameters in the Intermountain West. We cultured fungi from air and leaf surfaces, and collected continuous temperature and relative humidity measures over the growing season at 25 sites.
        
        
          Results
          Fungal richness was positively correlated with fungal abundance (r = 0.75). Measures of moisture availability, such as relative humidity and vapor pressure deficit, explained more of the variance in fungal abundance and richness than did temperature. Climate measurements from nearby weather stations were good predictors of fungal abundance and richness but not as good as weather measurements obtained in the field. Weather variables that took into account the proportion of time habitats experienced favorable or unfavorable relative humidity and temperatures were the best predictors, explaining up to 56% of the variation in fungal abundance and 72% for fungal richness.
        
        
          Conclusion
          Our results suggest that the abundance and richness of fungi in a habitat is limited by the duration of unfavorable weather conditions. Because fungal pathogens likely have similar abiotic requirements for growth as other fungi, characterizing weather conditions favorable for fungi also may be used to predict the selective pressures imposed by pathogenic fungi on plants in different habitats.
Modulation of intracellular calcium and proliferative activity of invertebrate and vertebrate cells by ethylene

Background
          Ethylene is a widely distributed alkene product which is formed enzymatically (e.g., in plants) or by photochemical reactions (e.g., in the upper oceanic layers from dissolved organic carbon). This gaseous compound was recently found to induce in cells from the marine sponge Suberites domuncula, an increase in intracellular Ca2+ level ([Ca2+]i) and an upregulation of the expression of two genes, the potential ethylene-responsive gene, SDERR, and a Ca2+/calmodulin-dependent protein kinase.
        
        
          Results
          Here we describe for the first time, that besides sponge cells, mammalian cell lines (mouse NIH-3T3 and human HeLa and SaOS-2 cells) respond to ethylene, generated by ethephon, with an immediate and strong, transient increase in [Ca2+]i level, as demonstrated using Fura-2 imaging method. A rise of [Ca2+]i level was also found following exposure to ethylene gas of cells kept under pressure (SaOS-2 cells). The upregulation of [Ca2+]i was associated with an increase in the level of the cell cycle-associated Ki-67 antigen. In addition, we show that the effect of ethephon addition to S. domuncula cells depends on the presence of calcium in the extracellular milieu.
        
        
          Conclusion
          The results presented in this paper indicate that ethylene, previously known to act as a mediator (hormone) in plants only, deserves also attention as a potential signaling molecule in higher vertebrates. Further studies are necessary to clarify the specificity and physiological significance of the effects induced by ethylene in mammalian cells.
Patent AT-E400303-T1: [Translated] COMBINED IMAGING CONTRAST AGENTS AND SYSTEMS AND METHODS THEREOF

In accordance with embodiments of the present technique, a combined modality imaging system (10) includes a first imaging device of a first modality (12) and a second imaging device of a second modality (14) that is different from the first modality (12). The first and the second imaging devices are both adapted to interact with a contrast agent (18) adapted to be received in a subject (16). The contrast agent (18) includes a deformable particle that has a geometry that varies in response to an emission from the first imaging device. The deformable particle also includes a fluorescent component (70) adapted to emit electromagnetic radiation (28) that is detectable by the second imaging device and a quenching component (72) separated from the fluorescent component (70) at a distance based on the geometry and that which is adapted to absorb a portion of the electromagnetic radiation (28) from the fluorescent component (70).
2015 CMHS Uniform Reporting System (URS) Table for Florida

2015 Center for Mental Health Services (CMHS) Uniform Reporting System (URS) Output Tables for Florida. The URS state reporting system is collected annually to support the Community Mental Health Services Block Grant program. State Mental Health Authorities report on National Outcome Measures (NOMS), evidence based practices, and utilization measures providing an overview of state mental health delivery systems.
Compound 528118: 2-(1-Ethylpropyl)pyrazine

Chemical compound data from PubChem database. IUPAC Name: 2-pentan-3-ylpyrazine. Molecular Formula: C9H14N2. Molecular Weight: 150.22. This dataset contains comprehensive chemical information including structural data, physical properties, and biological activities. Useful for drug discovery, chemical research, and educational purposes.
Compound 527363: 18,22,26-Trimethyl-tritriacontyl cyanide

Chemical compound data from PubChem database. IUPAC Name: 19,23,27-trimethyltetratriacontanenitrile. Molecular Formula: C37H73N. Molecular Weight: 532.0. This dataset contains comprehensive chemical information including structural data, physical properties, and biological activities. Useful for drug discovery, chemical research, and educational purposes.
Regional Partnership Grants National Cross-Site Evaluation (RPG-4)

To address the far-reaching consequences of adult substance use disorders on families and children, Congress authorized competitive grants to support partnerships among child welfare, substance abuse treatment, and related organizations. Children’s Bureau (CB) within the Administration for Children and Families, Administration on Children, Youth, and Families at the U.S. Department of Health and Human Services established the Regional Partnership Grant (RPG) program to implement programs to meet the needs of this target population.

CB funded Mathematica, along with its subcontractor Walter R. MacDonald & Associates (WRMA), to conduct a cross-site evaluation of the grantees’ RPG projects. Mathematica/WRMA designed a cross-site evaluation to address the following research questions: 

1. Which partners were involved in each RPG project and how did they work together?
2. How much progress did RPG4 projects make toward interagency collaboration and service coordination?
3. How did the child welfare and substance use treatment agencies work together to achieve the goals of RPG?
4. What referral sources did RPG projects use? Did referral sources change over time?
5. What are the characteristics of families who enrolled in RPG?
6. To what extent did RPG projects reach their target populations?
7. What core services were provided and to whom?
8. Were core services that families received different from the services proposed in grantee applications? If so, what led to the changes in planned services?
9. How engaged were participants with the services provided?
10. Which agencies (grantees and their partners) provided services?
11. What proportion of families exited RPG?
12. What plans and activities did RPG projects undertake to maintain the implementation infrastructure and processes during and after the grant period?
13. What plans and activities did RPG projects undertake to maintain the organizational infrastructure and processes after the grant period?
14. To what extent were RPG projects prepared to sustain services after the grant period?
15. What plans and activities did RPG projects undertake to develop funding strategies and secure resources needed after the grant period?
16. How did the federal, state, and local context affect RPG projects and their efforts to sustain RPG services?
17. What were the well-being, permanency, safety, recovery, and family functioning outcomes for children and adults who enrolled in RPG projects? 
18. What were the impacts of RPG projects on children and adults who enrolled in RPG?

The cross site evaluation uses several data sources to answer these research questions: (1) a partner study, (2) enrollment and services data, (3) outcomes data, and (4) site visits.

Investigators: Sarah Avellar, Ph.D., Mathematica, Washington, DC
Angela D'Angelo, Ph.D., Mathematica, Chicago
Elizabeth C. Weigensberg, Ph.D., Mathematica, Chicago
Juliette Henke, MPP, Mathematica, Princeton
Yange Xue, Ph.D., Mathematica, Princeton
Influence of CSP 310 and CSP 310-like proteins from cereals on mitochondrial energetic activity and lipid peroxidation

Background
          The development of chilling and freezing injury symptoms in plants is known to frequently coincide with peroxidation of free fatty acids. Mitochondria are one of the major sources of reactive oxygen species during cold stress. Recently it has been suggested that uncoupling of oxidation and phosphorylation in mitochondria during oxidative stress can decrease ROS formation by mitochondrial respiratory chain generation. At the same time, it is known that plant uncoupling mitochondrial protein (PUMP) and other UCP-like proteins are not the only uncoupling system in plant mitochondria. All plants have cyanide-resistant oxidase (AOX) whose activation causes an uncoupling of respiration and oxidative phosphorylation. Recently it has been found that in cereals, cold stress protein CSP 310 exists, and that this causes uncoupling of oxidation and phosphorylation in mitochondria.
        
        
          Results
          We studied the effects of CSP 310-like native cytoplasmic proteins from a number of cereal species (winter rye, winter wheat, Elymus and maize) on the energetic activity of winter wheat mitochondria. This showed that only CSP 310 (cold shock protein with molecular weight 310 kD) caused a significant increase of non-phosphorylative respiration. CSP 310-like proteins of other cereals studied did not have any significant influence on mitochondrial energetic activity. It was found that among CSP 310-like proteins only CSP 310 had prooxidant activity. At the same time, Elymus CSP 310-like proteins have antioxidant activity. The study of an influence of infiltration by different plant uncoupling system activators (pyruvate, which activates AOX, and linoleic acid which is a substrate and activator for PUMP and CSP 310) showed that all of these decreased lipid peroxidation during cold stress.
        
        
          Conclusions
          Different influence of CSP 310-like proteins on mitochondrial energetic activity and lipid peroxidation presumably depend on the various subunit combinations in their composition. All the plant cell systems that caused an uncoupling of oxidation and phosphorylation in plant mitochondria can participate in plant defence from oxidative damage during cold stress.
A short purification process for quantitative isolation of PrP

Background
          Transmissible spongiform encephalopathies (TSEs) are neurodegenerative diseases affecting both humans and animals. They are associated with post-translational conversion of the normal cellular prion protein (PrPC) into a heat- and protease-resistant abnormal isoform (PrPSc). Detection of PrPSc in individuals is widely utilized for the diagnosis of prion diseases.
        
        
          Methods
          TSE brain tissue samples have been processed in order to quantitatively isolate PrPSc. The protocol includes an initial homogenization, digestion with proteinase K and salt precipitation.
        
        
          Results
          Here we show that over 97 percent of the PrPSc present can be precipitated from infected brain material using this simple salting-out procedure for proteins. No chemically harsh conditions are used during the process in order to conserve the native quality of the isolated protein.
        
        
          Conclusion
          The resulting PrPSc-enriched preparation should provide a suitable substrate for analyzing the structure of the prion agent and for scavenging for other molecules with which it may associate. In comparison with most methods that exist today, the one described in this study is rapid, cost-effective and does not demand expensive laboratory equipment.
State-normed Well Water Index (WWI)

The WWI is a screening tool that uses nationally available datasets to summarize baseline characteristics about weather-related hazards and vulnerability at the census tract level for communities reliant on private wells. This dataset contains continental US census tracts for which there are state-normed WWI assigned. To visualize these data, please visit the Tracking Network at https://ephtracking.cdc.gov/DataExplorer/. For a lay description of these data, please visit https://ephtracking.cdc.gov/indicatorPages and for the scientific publication detailing these data please visit https://pubmed.ncbi.nlm.nih.gov/39510280/

The data for the nationally-normed WWI can be accessed here https://data.cdc.gov/dataset/Nationally-normed-WWI/fxwg-3udm/about_data.

The data for census tracts with no Well Water Index (WWI) assigned  can be accessed here https://data.cdc.gov/dataset/No-WWI/agqb-jgkw/about_data
2011 CMHS Uniform Reporting System (URS) Output Tables for Utah

Center for Mental Health Services (CMHS) Uniform Reporting System (URS) Output Tables for 2011. The Uniform Reporting System (URS) is a state and national reporting system collected annually to support the Community Mental Health Services Block Grant program. State Mental Health Authorities report on National Outcome Measures (NOMS), evidence based practices, and utilization measures providing an overview of state mental health delivery systems.