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WiFi RSS & RTT dataset with different LOS conditions for indoor positioning

This is the second batch of WiFi RSS RTT datasets with LOS conditions we published. Please see <code><a href="https://doi.org/10.5281/zenodo.11558192" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.11558192</a></code> for the first release.   We provide three real-world datasets for indoor positioning model selection purpose. We divided the area of interest was divided into discrete grids and labelled them with correct ground truth coordinates and the LoS APs from the grid. The dataset contains WiFi RTT and RSS signal measures and is well separated so that training points and testing points will not overlap. Please find the datasets in the 'data' folder. The datasets contain both WiFi RSS and RTT signal measures with groud truth coordinates label and LOS condition label. <ol> <li> Lecture theatre: This is a entirely LOS scenario with 5 APs. 60 scans of WiFi RTT and RSS signal measures were collected at each reference point (RP).  </li> <li> Corridor: This is a entirely NLOS scenario with 4 APs. 60 scans of WiFi RTT and RSS signal measures were collected at each reference point (RP).  </li> <li> Office: This is a mixed LOS-NLOS scenario with 5 APs. At least one AP was NLOS for each RP. 60 scans of WiFi RTT and RSS signal measures were collected at each reference point (RP).  </li> </ol> <div> <h2>Collection methodology</h2> The APs utilised were Google WiFi Router AC-1304, the smartphone used to collect the data was Google Pixel 3 with Android 9. The ground truth coordinates were collected using fixed tile size on the floor and manual post-it note markers.   Only RTT-enabled APs were included in the dataset. <h2>The features of the dataset</h2> </div> The features of the lecture theatre dataset are as follows: <div> <blockquote> <pre>Testbed area: 15 × 14.5 m2 Grid size: 0.6 × 0.6 m2 Number of AP: 5 Number of reference points: 120 Samples per reference point: 60 Number of all data samples: 7,200 Number of training samples: 5,400 Number of testing samples: 1,800 Signal measure: WiFi RTT, WiFi RSS Note: Entirely LOS </pre> </blockquote> <div> </div> </div> The features of the corricor dataset are as follows: <div> <blockquote> <pre>Testbed area: 35 × 6 m2 Grid size: 0.6 × 0.6 m2 Number of AP: 4 Number of reference points: 114 Samples per reference point: 60 Number of all data samples: 6,840 Number of training samples: 5,130 Number of testing samples: 1,710 Signal measure: WiFi RTT, WiFi RSS Note: Miexed LOS-NLOS. At least one AP was NLOS for each RP. </pre> </blockquote> <div> </div> </div> The features of the office dataset are as follows: <div> <blockquote> <pre>Testbed area: 18 × 5.5 m2 Grid size: 0.6 × 0.6 m2 Number of AP: 5 Number of reference points: 108 Samples per reference point: 60 Number of all data samples: 6,480 Number of training samples: 4,860 Number of testing samples: 1,620 Signal measure: WiFi RTT, WiFi RSS Note: Entirely NLOS </pre> </blockquote> <div> </div> </div> <div> <h2>Dataset explanation</h2> </div> The columns of the dataset are as follows: <div> <pre>Column 'X': the X coordinates of the sample. Column 'Y': the Y coordinates of the sample. Column 'AP1 RTT(mm)', 'AP2 RTT(mm)', ..., 'AP5 RTT(mm)': the RTT measure from corresponding AP at a reference point. Column 'AP1 RSS(dBm)', 'AP2 RSS(dBm)', ..., 'AP5 RSS(dBm)': the RSS measure from corresponding AP at a reference point. Column 'LOS APs': indicating which AP has a LOS to this reference point. </pre> </div> Please note: <ul> <li> The RSS value -200 dBm indicates that the AP is too far away from the current reference point and no signals could be heard from it. </li> <li> The RTT value 100,000 mm indicates that no signal is received from the specific AP. </li> </ul>   <h2>Citation request</h2> When using this dataset, please cite the following three items: <code>Feng, X., Nguyen, K. A., & Zhiyuan, L. (2024). WiFi RSS & RTT dataset with different LOS conditions for indoor positioning [Data set]. Zenodo. https://doi.org/10.5281/zenodo.11558792</code>   <pre><code>@article{feng2024wifi, title={A WiFi RSS-RTT indoor positioning system using dynamic model switching algorithm}, author={Feng, Xu and Nguyen, Khuong An and Luo, Zhiyuan}, journal={IEEE Journal of Indoor and Seamless Positioning and Navigation}, year={2024}, publisher={IEEE} }</code> <code>@inproceedings{feng2023dynamic, title={A dynamic model switching algorithm for WiFi fingerprinting indoor positioning}, author={Feng, Xu and Nguyen, Khuong An and Luo, Zhiyuan}, booktitle={2023 13th International Conference on Indoor Positioning and Indoor Navigation (IPIN)}, pages={1--6}, year={2023}, organization={IEEE} }</code></pre>

PreTIS2 Positive and Negative Training Data

We retrieved experimental data on translation initiation sites in HEK293T cells from table S2 of (https://doi.org/10.1093/nar/gkab549) that were determined by those authors using a protocol termed TISCA. As we wanted to focus on non-canonical translation, we filtered that data and kept only truncation, extension, uORF, and overlap.uORF translation initiation types that involve either ATG or any of the nine near-cognate start codons. Using the translated amino acid sequences and transcript version IDs provided by (https://doi.org/10.1093/nar/gkab549), we fetched the respective 5'UTR and cDNA nucleotide sequences from ensembl biomart using human gencode GRCh38.p13. Then, we scanned each cDNA sequence in all three open reading frames and identified the longest matching nucleotide sequence that encodes the respective amino acid chain. For extension, uORF, and overlap.uORF initiation sites, the start site had to be inside the 5'UTR. For truncation initiation sites, the start site had to be inside the coding sequence.  We also needed to construct negative cases where translation initiation supposedly does not occur. To this aim, we scanned the 5'UTR sequences for all 10 possible start codons. As negatives, we then considered those start codons that were not detected by TISCA, but have enough nucleotides upstream to meet the feature criteria. This resulted in a massive imbalance between both classes, with 17 times as many negatives as positive samples.  We used as features the identity of the 20 nucleotide positions upstream of a putative start codon, represented as "U", and the 20 nt positions downstream, represented as "D". As each start codon may have its own optimal sequence context, we additionally considered the nature of the particular translation initiation start codon (ATG, CTG, GTG, TTG, AAG, ACG, AGG, ATA, ATC, and ATT). The positive and negative datasets can be found below. Whereby, each row is a possible translation initiation site and the columns symbolize the flanking nucleotide for each position as well as the start codon used.

Dataset used in publication titled " Dependence of climate and carbon cycle response in net zero emission pathways on the magnitude and duration of positive and negative emission pulses"

Essential model data use to produce figures and tables for the publication titled " Dependence of climate and carbon cycle response in net zero emission pathways on the magnitude and duration of positive and negative emission pulses"

Data from: Challenging trophic position assessments in complex ecosystems: calculation method, choice of baseline, trophic enrichment factors, season and feeding guild do matter. A case study from Marquesas Islands coral reefs

Assessments of ecosystem functioning are a fundamental ecological challenge and an essential foundation for ecosystem-based management. An understanding of species trophic positions (TP) is essential to characterize food web architecture. However, despite the intuitive nature of the concept, empirically estimating TP is a challenging task due to the complexity of trophic interaction networks. Various alternative methods are proposed to assess TPs, including different approaches to account for the different sources of organic matter at the base of the food web (the "baseline"). However, it is often not clear which methodological approach and which baseline choices are the most reliable. Using an ecosystem-wide assessment of a tropical reef (Marquesas Islands, French Polynesia, with available data for 70 coral reef invertebrate and fish species), we tested whether different commonly used TP estimation methods yield similar results and, if not, whether it is possible to identify the most reliable method. We found significant differences in TP estimates of up to 1.7 TP for the same species, depending on the method and the baseline used. When using bulk stable isotope data, the choice of the baseline significantly impacted TP values. Indeed, while δ15N values of macroalgae led to consistent TP estimates, those using phytoplankton generated unrealistically low TP estimates. The use of a conventional enrichment factor (i.e. 3.4 ‰) or a "variable" enrichment factor (i.e. according to feeding guilds) also produced clear discrepancies between TP estimates. Regarding the use of different calculation methods, TPs obtained with δ15N values of source amino acids (compound specifics isotope analysis) were close to those assessed with macroalgae, but evidenced the opposite seasonal pattern, with significantly lower TPs in winter than in summer for the majority of assessed species, with particularly pronounced differences for lower TP species. We use the observed differences to discuss possible drivers of the diverging TP estimates and the potential ecological implications.

A Mid-crustal Channel of Positive Radial Anisotropy Beneath the Eastern South China Block From F-J Multimodal Ambient Noise Tomography

It contains the CCAB-FJpy, the Python code package for calculating the multi-component cross-correlation functions (CCFs) and extracting multimodal Love dispersions with multi-component frequency-Bessel (F-J) transform method. . Also, it contains multi-component CCFs (i.e., RR and TT), Vsh model and 3-D crustal radial anisotropy model of the eastern South China Block (ESCB).

Slope position affects growth and allometry of the endangered conifer Calocedrus macrolepis by mediating soil properties and microbial communities

Premise: The allometric relationships among growth traits are highly relevant for a tree's fitness, however, the mechanism of how the slope position affects the plant growth and allometry remains poorly understood, hindering our understanding of the variation in allometry of trees along slope position in mountainous areas. Methods: A typical slope of Calocedrus macrolepis plantation in southwest China was chosen to measure growth traits and their allometric relationships. In addition, spatial variations in soil properties and microbial communities were also investigated. Results: Slope position altered the allometric growth pattern with the larger allometric exponents of the tree height, diameter and wood volume relative to the crown size and height under the branch for the downslope. Additionally, most of soil nutrients, microbial diversity and abundances were greater at mesoslope and downslope, especially at the surface soil layer. The relative abundance both in Chloroflexi and Actinobacteria differed significantly among slope positions, while fungal dominant phyla abundances varied little across slope positions, indicating that bacterial community was more sensitive to slope position than fungal community. The growth traits and allometry were affected by the slope position, which is mainly caused by the variations of soil properties and microbial communities, and bacteria were more important than fungi in their relationships to growth traits and allometry. Conclusions: Together, results emphasized that slope position indirectly influences the growth traits and allometry of C. macrolepis by regulating soil nutrients and microbial communities, which will provide important theoretical basis for the plantation management of C. macrolepis.

Data from: Positive spatial and temporal density-dependence drive early reproductive economy-of-scale effects of masting in a European old-growth forest community

Masting, the spatial synchronization of interannual variation in seed production, can enhance reproductive efficiency through positive density-dependent processes (DD) that result in economies of scale (EOS), such as decreased pollen limitation and predator satiation in years of high reproduction. While the general occurrence of such EOS effects has been documented for masting species, few studies simultaneously investigated how spatial and temporal variation in reproduction affects pollination and predation. Furthermore, it is unclear whether the same mechanisms apply to co-occurring species with different levels of conspecific density, pollen limitation, and seed defenses. Here, we use a long-term data set with high spatial resolution of seed production of European beech (Fagus sylvatica), Norway spruce (Picea abies), and silver fir (Abies alba) in a primeval montane forest to investigate the relationship between reproductive effort, pollination efficiency, and predispersal predation by insects. We found that, along the temporal axis, the proportion of sound (fertilized and unpredated) seeds correlated positively with annual seed production over the 14-year study period in all three species, most strongly in beech and only weakly in silver fir. Moreover, the results show that in beech, spatial seed density interacts with plot-wide annual seed rain to enhance DD effects on seed predation, suggesting additive effects of synchronous reproduction on fitness benefits. Synthesis: For both pollination and predispersal predation in beech and spruce, the strongest DD effects occur at low levels of reproduction and quickly reach asymptotes at higher levels, suggesting the presence of thresholds in different EOS mechanisms. As variability and synchrony in mast-seeding are expected to decline with climate change, EOS effects driven by DD may remain stable until the threshold is reached, at which sudden declines would result in devastating effects on the availability of viable seeds for germination and recruitment.

Positive correlation between Ammospiza caudacuta (Saltmarsh Sparrow) capture and productivity supports use of a novel rapid assessment monitoring protocol

Salt marshes in the northeastern United States provide critical breeding habitat for tidal marsh specialist birds like the Saltmarsh Sparrow (Ammospiza caudacuta). The Saltmarsh Sparrow population has declined by nine percent annually, necessitating immediate conservation actions for this vulnerable species. However, estimating species vital rates across a large geographic region is logistically challenging and cost prohibitive. Therefore, we developed and tested a rapid assessment monitoring protocol focused on reproductive metrics to enhance future conservation planning. We used three years of intensive demographic data from 12 sites to estimate daily nest survival, nest period success, fledglings produced per female, and successful broods per female. We implemented the rapid assessment protocol co-located at intensive sites in the same years to estimate the number of captured females and juveniles. We used Pearson's correlation analyses to determine the association of intensive metrics with rapid metrics. We found that the sum of Saltmarsh Sparrow female and juvenile captures was positively correlated with daily nest survival, nest period success, fledglings produced per female, and successful broods per female. Our results demonstrate that fixed-effort mist-netting from our rapid assessment protocol is an informative and time-efficient sampling method that can aid in making informed management decisions related to Saltmarsh Sparrow conservation.

ms data positive mode CUSO 2024

ms data positive mode CUSO 2024 Metadata at https://github.com/digital-botanical-gardens-initiative/dbgi-metabolomics

opencc-by-4.0Dec 2017View details →

Fig. 3 in Positive Effect Of Compost Application On Oil Pumpkins Growth And Zinc Enrichment

Fig. 3. Influence of zinc content in compost for fruits maturity.

opencc-by-4.0Dec 2017View details →

Fig. 2 in Positive Effect Of Compost Application On Oil Pumpkins Growth And Zinc Enrichment

Fig. 2. Accumulation of zinc in seeds depending on the properties of compost.

opencc-by-4.0Jul 2024View details →

Metagenomics education in a modular CURE format positively affects students' scientific discovery perception and data analytical skills

The targeted metagenomics study performed by Pollock et al. (Pollock 2018) was part of the Global Coral Microbiome Project (Vega Thurber Lab 2014).  Since the original publication of Pollock et al. (Pollock 2018) was written for a highly specialized academic public, we provided Bsc. students with a short introduction of the paper and guided them through the metadata table stored in the gcmp16S_map_r25.txt file under the GCMP Australia sequence data, OTU tables, and metadata folder (<a href="https://doi.org/10.6084/m9.figshare.c.3855466.v2">https://doi.org/10.6084/m9.figshare.c.3855466.v2</a>). In order to process the fastq-files and obtain OTU tables, a custom-made pipeline on a Galaxy instance (Galaxy Community) was used. This pipeline contained data analytical tools obtained from the Naturalis Biodiversity Center GitHub environment (<a href="https://github.com/naturalis">https://github.com/naturalis</a>). In order to align with the newest Galaxy best practices, we updated the tools and links to the original as well as the updated GitHub and toolshed versions are included in the references list. The names of the original raw fastq-files contain many dots which can hamper file-type recognition during downstream analyses in Galaxy. Therefore, prior to distributing the fastq-files to the students, these names were renamed using the ManageZIP tool (The BLFS Development Team 1999-2023). Dots were replaced with underscores, with an exception made for the last 2 file type extension dots. For example, the file name E1.2.Tur.pelt.1.20140814.M_S71_L001_R1_001.fastq.gz was changed into E1_2_Tur_pelt_1_20140814_M_S71_L001_R1_001_1.fastq.gz. Similarly, the filenames in the metadata table were adjusted accordingly. The total collection of renamed file names is available through this zenodo repository as wel as the accompanying metadata file.

opencc-by-4.0Mar 2015View details →

Fig. 23 in Dorsal chaetotaxy of neotropical species supports a basal position for the genus Lepidonella among scaled Paronellidae (Collembola, Entomobryoidea)

Fig. 23. Lepidonella marimuti, dorsal chaetotaxy of abdomen 4.

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Fig. 9 in Dorsal chaetotaxy of neotropical species supports a basal position for the genus Lepidonella among scaled Paronellidae (Collembola, Entomobryoidea)

Fig. 9. Lepidonella zeppelinii sp. nov., dorsal chaetotaxy of thorax 2 to abdomen 3.

opencc-by-4.0Mar 2015View details →

Fig. 22 in Dorsal chaetotaxy of neotropical species supports a basal position for the genus Lepidonella among scaled Paronellidae (Collembola, Entomobryoidea)

Fig. 22. Lepidonella marimuti, dorsal chaetotaxy of thorax 2 to abdomen 3.

Figure 8 in Taxonomic position of species of the genus Buthacus Birula, 1908 described by Ehrenberg and Lourenço, and description of a new species (Scorpiones: Buthidae)

Figure 8: Buthacus macrocentrus, female lectotype, dorsal aspect.

Figure 7 in Taxonomic position of species of the genus Buthacus Birula, 1908 described by Ehrenberg and Lourenço, and description of a new species (Scorpiones: Buthidae)

Figure 7: Buthacus leptochelys, male lectotype of Androctonus (Leiurus) thebanus, dorsal aspect.

Figure 5 in Taxonomic position of species of the genus Buthacus Birula, 1908 described by Ehrenberg and Lourenço, and description of a new species (Scorpiones: Buthidae)

Figure 5: Buthacus leptochelys, female lectotype, dorsal aspect.

Figure 4 in Taxonomic position of species of the genus Buthacus Birula, 1908 described by Ehrenberg and Lourenço, and description of a new species (Scorpiones: Buthidae)

Figure 4: Buthacus ehrenbergi sp. n., male holotype, ventral aspect.

Figure 3 in Taxonomic position of species of the genus Buthacus Birula, 1908 described by Ehrenberg and Lourenço, and description of a new species (Scorpiones: Buthidae)

Figure 3: Buthacus ehrenbergi sp. n., male holotype, dorsal aspect.