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241 results for “low-cost”
AirMLP - SPS30 low-cost sensors and Tecora reference station PM 2.5 data
<p>The information below describes a dataset related to a study conducted in Turin, Italy, involving low-cost laser-scattering SPS30 sensors placed by Wiseair SRL and a Tecora reference station placed by Arpa Piemonte (Italian Air Quality Agency). This dataset spans two different time periods in 2022, specifically from March 1, 2022, to April 29, 2022, and from October 26, 2022, to December 30, 2022. The data in this dataset pertains to the mass concentration of PM2.5 (particulate matter with a diameter of 2.5 micrometres or less).</p><p> </p><p>The reference station's data is divided into two periods and is provided in files named "rf_x.csv." These files contain hourly data and timestamps in GMT+1. Each file has three columns:</p><ul><li>"valid_at" (in Rome local hour, GMT+1)</li><li>"valore_originale" (PM 2.5 raw mass concentration values recorded by the reference station)</li><li>"pm2p5" (PM 2.5 mass concentration validated values by the air quality agency)</li></ul><p>The low-cost sensors, referred to as "ari_xxxx.csv," provide data at approximately 15-minute frequency. These files contain the following columns:</p><ul><li>"valid_at" (in GMT)</li><li>"pm2p5" (PM 2.5 raw mass concentration measured by the SPS30 sensor)</li><li>"relative_humidity" (expressed as a percentage)</li><li>"temperature" (in degrees Celsius)</li><li>"pressure" (in hPA)</li><li>"wind_speed" (in meters per second)</li><li>"cloud_coverage" (expressed as a percentage)</li></ul><p>Notably, the "relative_humidity" and "temperature" values are gathered from sensors placed within a device containing the SPS30 low-cost sensor.</p><p> </p><p>Here's a summary of the specific data files in this dataset:</p><ul><li>"<strong>rf_1.csv</strong>": Hourly data provided by the Air Quality Agency for the first period.</li><li>"<strong>rf_2.csv</strong>": Hourly data provided by the Air Quality Agency for the second period.</li><li>"<strong>arpa_1727.csv</strong>," "<strong>arpa_1952.csv</strong>," and "<strong>arpa_1953.csv</strong>": Three low-cost sensors placed by Wiseair, which refer to the first period.</li><li>"<strong>arpa_1885.csv</strong>" and "<strong>arpa_2049.csv</strong>": Two low-cost sensors placed by Wiseair, that refer to the second period.</li></ul>
High-resolution images from a low-cost imaging device for hyphae in soil
<p>This dataset contains high-resolution images produced by a low-cost imaging device for hyphae in soil called <em>Hyphascope</em>. Using a digital microscope camera (DMC; 600× magnification),<em> </em>the device takes detailed images (0.83 × 0.62 mm imaged area) of a soil profile from evenly spaced camera positions within a user-defined volume. Repeated imaging of a soil profile with <em>Hyphascope</em> enables researchers to observe and quantify changes in the amount, distribution, and morphology of hyphae.</p> <p>Individual images were combined using the <em>Grid/Collection stitching</em> plugin of the <em>Fiji</em> distribution of <em>imageJ</em> (Preibisch et al. 2009). All images are supplied in the JPG format to limit their file size. For more details on the assembly and application of <em>Hyphascope</em>, see <a href="https://doi.org/10.17504/protocols.io.bp2l6xo3zlqe/v1">this protocol on protocols.io</a>. For information on the development, limitations, and expected outcomes of the protocol, see <a href="https://doi.org/10.1371/journal.pone.0318083">this article</a> published in PLOS ONE. </p> <p> </p> <div> <h2>Image set 1: 10 × 10 mm soil profile area at 20 - 30 mm soil depth</h2> <p>Imaged at 0.65 μm px<sup>-1</sup> (39200 dpi)* in a <em>Quercus serrata</em> grove on 2023/05/25 during a period of high hyphal density in the soil.</p> <h3>Individual images (18 rows × 14 images each)</h3> <ul> <li> <p><em>set1_foc00000.zip</em> (focus depth 0 mm)</p> </li> </ul> <h3>Combined images</h3> <ul> <li> <p><em>set1_foc00000_combined.jpg</em> (focus depth 0 mm)</p> </li> </ul> <h2>Image set 2: 5 × 5 mm soil profile area at 100 - 105 mm soil depth</h2> <p>Imaged at 0.52 μm px<sup>-1</sup> (49000 dpi) in a <em>Quercus serrata</em> grove on 2023/09/25.</p> <h3>Individual images (9 rows × 7 images each)</h3> <ul> <li> <p><em>set1_foc00000.zip</em> (focus depth 0 mm)<em><br></em></p> </li> <li> <p><em>set1_foc00025zip</em> (focus depth 0.025 mm)</p> </li> <li><em>set1_foc00050.zip</em> (focus depth 0.05 mm)</li> </ul> <h3>Combined images</h3> <ul> <li> <p><em>set1_foc00000_combined.jpg</em> (focus depth 0 mm)</p> </li> <li> <p><em>set1_foc00025_combined.jpg</em> (focus depth 0.025 mm)</p> </li> <li><em>set1_foc00050_combined.jpg</em> (focus depth 0.05 mm)</li> </ul> <h2>Image set 3: 5 × 5 mm soil profile area at soil surface level</h2> <p>Imaged at 0.52 μm px<sup>-1</sup> (49000 dpi) in a <em>Quercus serrata</em> grove on 2023/10/14 during a rain event.</p> <h3>Individual images (9 rows × 7 images each)</h3> <ul> <li> <p><em>set2_foc00000.zip</em> (focus depth 0 mm)<em><br></em></p> </li> <li> <p><em>set2_foc00025zip</em> (focus depth 0.025 mm)</p> </li> <li><em>set2_foc00050.zip</em> (focus depth 0.05 mm)</li> </ul> <h3>Combined images</h3> <ul> <li> <p><em>set2_foc00000_combined.jpg</em> (focus depth 0 mm)</p> </li> <li> <p><em>set2_foc00025_combined.jpg</em> (focus depth 0.025 mm)</p> </li> <li><em>set2_foc00050_combined.jpg</em> (focus depth 0.05 mm)</li> </ul> <p> </p> <p> </p> <p><em>*Units of imaging resolution: </em></p> <ol> <li><em>pixel width (μm px-1), i.e. the horizontal or vertical distance on the imaged surface covered by a single pixel; </em></li> <li><em>dots per inch (dpi), i.e. the number of pixels along a horizontal or vertical distance of 25.4 mm on the imaged surface.</em></li> </ol> </div>
The potential of low-cost UAVs and open-source photogrammetry software for high-resolution monitoring of alpine glaciers: A case study from the Kanderfirn (Swiss Alps)
<p>This dataset contains high-resolution orthophotos (5 x 5 cm) and digital surface models (25 x 25 cm) of the Kandernfirn Glacier located in the Swiss Alps. Aerial images were aquired with a self-developed fixed-wing Unmanned Aerial Vehicle during ten surveys on five different days in 2017 and 2018. The open-source photogrammetry software OpenDroneMap (version 0.4.1) was used for image processing.</p> <p>The orthophotos and digital surface models were validated through dGNSS point measurements of ground control points. Please refer to the corresponding paper for information on the horizontal and vertical accuracy of the files.</p>
GNSS troposphere products from a network of low-cost GNSS receivers, Wroclaw, Poland, March-April 2021
<p>This dataset contains multi-GNSS troposphere products, i.e. ECEF coordinates, zenith total delay (ZTD), and horizontal gradients, together with their uncertainties. These products were obtained using 3 processing strategies:</p> <p>1) real-time (for details see https://link.springer.com/article/10.1007/s10291-020-01014-w, under to "advanced strategy" configuration, with the exception that only GPS and Galileo observations were considered);</p> <p>2) near real-time (NRT, for details see http://egvap.dmi.dk/);</p> <p>3) final (using CSRS online service, https://webapp.geod.nrcan.gc.ca/geod/tools-outils/ppp.php).</p> <p>Products are stored as standard Matlab MAT files. Each file contains a set of table arrays (Matlab format). Each table array contains the selected set of estimated parameters for a single station. Table columns are labeled and self-explanatory. A comma-delimited text file can be obtained using the in-build Matlab function "writetable.m".</p> <p>For convenience, the same information is stored in alternative data formats:</p> <p>1) for NRT and Final products: troposphere SINEX v1 (TRO / TRP)</p> <p>2) for real-time products: semicolon-delimited text files, with a self-explanatory header line; each file contains daily products for one station.</p>
Evaluation and Calibration of a Low-cost Particle Sensor in Ambient Conditions Using Machine Learning Methods
<p>Particle sensing technology has shown great potential for monitoring particulate matter (PM) with very few temporal and spatial restrictions because of its low-cost, compact size, and easy operation. However, the performance of low-cost sensors for PM monitoring in ambient conditions has not been thoroughly evaluated. Monitoring results by low-cost sensors are often questionable. In this study, a low-cost fine particle monitor (Plantower PMS 5003) was co-located with a reference instrument, named Synchronized Hybrid Ambient Real-time Particulate (SHARP) monitor, in Calgary Varsity air monitoring station from December 2018 to April 2019. The study evaluated the performance of this low-cost PM sensor in ambient conditions and calibrated its readings using simple linear regression (SLR), multiple linear regression (MLR), and two more powerful machine learning algorithms using random search techniques for the best model architectures. The two machine learning algorithms are XGBoost and feedforward neural network (NN). Field evaluation showed that the Pearson r between the low-cost sensor and the SHARP instrument was 0.78. Fligner and Killeen (F-K) test indicated a statistically significant difference between the variances of the PM<sub>2.5 </sub>values by the low-cost sensor and by the SHARP instrument. Large overestimations by the low-cost sensor before calibration were observed in the field and were believed to be caused by the variation of ambient relative humidity. The root mean square error (RMSE) was 9.93 when comparing the low-cost sensor with the SHARP instrument. The calibration by the feedforward NN had the smallest RMSE of 3.91 in the test dataset, compared to the calibrations by SLR (4.91), MLR (4.65), and XGBoost (4.19). After calibrations, the F-K test using the test dataset showed that the variances of the PM<sub>2.5</sub> values by the NN and the XGBoost and by the reference method were not statistically significantly different. From this study, we conclude that feedforward NN is a promising method to address the poor performance of the low-cost sensors for PM<sub>2.5</sub> monitoring. In addition, the random search method for hyperparameters was demonstrated to be an efficient approach for selecting the best model structure.</p>
Design files for a low-cost high-resolution imaging device for hyphae in soil
<p>This dataset contains the stereolithography (STL) files for the 3D-printed and cut parts of a low-cost high-resolution imaging device for hyphae in soil called <em>Hyphascope</em>. The design of <em>Hyphascope</em> was adopted from the 3D printer i3 MK3S+ by Prusa Research, with a digital microscope camera (DMC; 600× magnification) replacing the filament extruder. Repeated imaging of a soil profile with the imaging device enables researchers to observe and quantify changes in the amount, distribution, and morphology of hyphae.</p> <p>The parts were created and modified using <a href="https://www.freecad.org">FreeCAD</a> (version 0.20). STL files for the original parts are distributed under the Creative Commons Attribution 4.0 International License, STL files for the remixed parts under the GNU General Public License v2.0. For a detailed description on how to prepare and assemble the parts see <a href="https://doi.org/10.17504/protocols.io.bp2l6xo3zlqe/v1">this protocol on protocols.io</a>. For information on the development, limitations, and expected outcomes of the protocol, see <a href="https://doi.org/10.1371/journal.pone.0318083">this article</a> published in PLOS ONE.</p> <p> </p> <div> <h2>STL files of 3D-printed parts</h2> <h3>Original parts</h3> </div> <div> <div> <ul> <li><em>dmc-attachment.stl</em></li> <li> <div><em>dmc-attachment-gear.stl</em></div> </li> <li><em>dmc-attachment-gear-wider.stl</em> (optional part)<em><br></em></li> <li><em>dmc-holder-back.stl</em></li> <li><em>dmc-holder-front.stl</em></li> <li><em>f-axis-motor-gear.stl</em></li> <li><em>f-axis-spring-end.stl</em></li> <li><em>f-axis-tighteners.stl</em></li> <li><em>frame-foot-inserts.stl</em></li> <li> <div><em>frame-foot-left.stl</em></div> </li> <li> <div><em>frame-foot-right.stl</em></div> </li> <li> <div><em>frame-hat.stl</em></div> </li> <li> <div><em>frame-hat-insert.stl</em></div> </li> </ul> </div> <h3>Remixed parts originally designed by Prusa Research</h3> <p><em>The five parts below are <strong>remi</strong></em><strong><em>xed from <a href="https://www.printables.com/model/57217-i3-mk3s-printable-parts">i3 MK3S+ printable parts</a> </em></strong><em>and </em><strong><em>re-distributed under the <a href="http://www.gnu.org/licenses/old-licenses/gpl-2.0.html">GNU General Public License v2.0</a></em></strong><em>.</em></p> </div> <ul> <li> <div><em>dmc-carriage-back.stl</em> (Remix of <em>x-carriage-back.stl</em>; the design was largely modified to fit the DMC including changes to the shape and screw hole placement; the inserts for the linear bearings have the most resemblence to the original part.)</div> </li> <li><em>dmc-carriage-front.stl </em>(Remix of <em>x-carriage.stl</em>; the design was largely modified to fit the DMC including changes to the shape and screw hole placement; the inserts for the linear bearings have the most resemblence to the original part.)</li> <li><em>x-end-idler-mod.stl</em> (Remix of <em>x-end-idler.stl</em>; the height was increased by 20 mm.)</li> <li><em>x-end-motor-mod.stl</em> (Remix of <em>x-end-motor.stl</em>; the height was increased by 20 mm and the counterbores of the three motor screws were moved to the opposite side.)</li> <li><em>z-axis-top-mod.stl </em>(Remix of <em>z-axis-top.stl</em>; 14.8 mm-long spacers were added.)</li> </ul> <h3>Parts designed by Prusa Research</h3> <ul> <li> <div><em>z-axis-bottom.stl</em> (available from <a href="https://www.printables.com/model/57217-i3-mk3s-printable-parts" target="_blank" rel="noopener">Printables</a>)</div> </li> <li> <div><em>z-screw-cover.stl</em> (available from <a href="https://www.printables.com/model/57217-i3-mk3s-printable-parts" target="_blank" rel="noopener">Printables</a>)</div> </li> </ul> <p> </p> <div> <h2>STL files of cut parts</h2> <h3>Original parts</h3> </div> <ul> <li><em>box-bottom.stl</em></li> <li><em>box-hook.stl</em></li> <li> <div><em>box-lid.stl</em></div> </li> <li> <div><em>box-lid-frame.stl</em></div> </li> <li><em>box-lid-valve-base.stl</em></li> <li><em>box-wall.stl</em></li> <li><em>box-wall-cables.stl</em></li> <li> <div><em>frame.stl</em></div> </li> </ul> <p> </p>
Low-Cost Sensors and Multitemporal Remote Sensing for Operational Turbidity Monitoring in an East African Wetland Environment - Measurements and Locations
<p>Many wetlands in East Africa are farmed and wetland reservoirs are used for irrigation, livestock, and fishing. Water quality and agriculture have a mutual influence on each other. Turbidity is a principal indicator of water quality and can be used for, otherwise, unmonitored water sources. Low-cost turbidity sensors improve in situ coverage and enable community engagement. The availability of high spatial resolution satellite images from the Sentinel-2 multispectral instrument and of bio-optical models, such as the Case 2 Regional CoastColor (C2RCC) processor, has fostered turbidity modeling. However, these models need local adjustment, and the quality of low-cost sensor measurements is debated. We tested the combination of both technologies to monitor turbidity in small wetland reservoirs in Kenya. We sampled ten reservoirs with low-cost sensors and a turbidimeter during five Sentinel-2 overpasses. Low-cost sensor calibration resulted in an R² of 0.71. The models using the C2RCC C2X-COMPLEX (C2XC) neural nets with turbidimeter measurements (R² = 0.83) and with low-cost measurements (R² = 0.62) performed better than the turbidimeter-based C2X model. The C2XC models showed similar patterns for a one-year time series, particularly around the turbidity limit set by Kenyan authorities. This shows that both the data from the commercial turbidimeter and the low-cost sensor setup, despite sensor uncertainties, could be used to validate the applicability of C2RCC in the study area, select the better-performing neural nets, and adapt the model to the study site. We conclude that combined monitoring with low-cost sensors and remote sensing can support wetland and water management while strengthening community-centered approaches.</p> <p>The provided dataset includes a point shapefile with the studied reservoirs in central Kenya and a data table with the sampling date (Sentinel-2 overpass plus/minus one day), low-cost sensor setup number, reservoir ID, sampling location within the reservoir, the voltage measurements of the three respective low-cost sensor heads for sensor setups A and B, the averaged voltage, and the turbidimeter measured turbidity value in nephelometric turbidity units (NTU).</p> <p>The study is available in (please cite):</p> <div> <div>Steinbach, S., Rienow, A., Chege, M.W., Dedring, N., Kipkemboi, W., Thiong’o, B.K., Zwart, S.J., Nelson, A., 2024. Low-Cost Sensors and Multitemporal Remote Sensing for Operational Turbidity Monitoring in an East African Wetland Environment. <em>IEEE J. Sel. Top. Appl. Earth Observations Remote Sensing</em> <em>17</em>, 8490–8508. <a href="https://doi.org/10.1109/JSTARS.2024.3381756">https://doi.org/10.1109/JSTARS.2024.3381756</a></div> </div> <p>This research was supported in part by the German Federal Ministry of Education and Research (BMBF) through the Project “Participatory Approach to Environmental Conservation of the Muringato Catchment Area for Sustainable Management and Enhanced Ecosystem Health” (CITGI4Muringato) under Grant Agreement No. 01DG20022.</p>
Scan4CFU: Low-cost, open-source bacterial colony tracking over large areas and extended incubation times
<p>A hallmark of bacterial populations cultured <em>in vitro</em> is their homogeneity of growth, where the majority of cells display identical growth rate, cell size and content. Recent insights, however, have revealed that even cells growing in exponential growth phase can be heterogeneous with respect to variables typically used to measure cell growth. Bacterial heterogeneity has important implications for how bacteria respond to environmental stresses, such as antibiotics. The phenomenon of antimicrobial persistence, for example, has been linked to a small subpopulation of cells that have entered into a state of dormancy where antibiotics are no longer effective. While methods have been developed for identifying individual non-growing cells in bacterial cultures, there has been less attention paid to how these cells may influence growth in colonies on a solid surface. In response, we have developed a low-cost, open-source platform to perform automated image capture and image analysis of bacterial colony growth on multiple nutrient agar plates simultaneously. The descriptions of the hardware and software are included, along with details about the temperature-controlled growth chamber, high-resolution scanner, and graphical interface to extract and plot the colony lag time and growth kinetics. Experiments were conducted using a wild type strain of <em>Escherichia coli </em>K12 to demonstrate the feasibility and operation of our setup. By automated tracking of bacterial growth kinetics in colonies, the system holds the potential to reveal new insights into understanding the impact of microbial heterogeneity on antibiotic resistance and persistence. </p>
Image dataset for the evaluation of a low-cost high-throughput plant phenotyping system
<p>This dataset contains the raw and processed images from a low-cost high-throughput plant phenotyping (HTP) system, as well as the raw and processed images that were manually acquired for comparison. The HTP images were automatically and wirelessly acquired for entire benches of plants with a system composed of a Raspberry Pi and eight GoPro cameras. The entire file system of each GoPro camera was copied directly into a subfolder of finalGoProImages (numbered by camera). The raw HTP images were processed by correcting for lens distortion, computing the "greenness index" for each individual pixel, and filtering out extreme high and low values. These processed HTP images were then saved in the "greenness" subfolder of finalGoProImages. The manually acquired images in the finalDSLR folder each represent an individual plant from one of five time points during the same greenhouse experiment. The raw manually acquired images were processed in the same manner as the raw HTP images by computing the greenness index for each individual pixel and filtering out extreme high and low values. The two tab-delimited text files include the number of green pixels and mean greenness index for each HTP (greennessGoProTable2.txt) and manually acquired (greennessDSLRTable2.txt) image.</p>
Raw data and code for "Addressing gaps in small-scale fisheries: a low-cost tracking system"
<p>This repository contains the raw data and code to reproduce results and plots presented in: "Addressing gaps in small-scale fisheries: a low-cost tracking system". The release contains:</p> <ul> <li>ssf_function.R. The R function developed for the analysis</li> <li>ssf_workflow.R. The R scripts to reproduce the analysis and the results.</li> <li>gps_data.csv. Raw data used in the paper</li> </ul>
Laboratory comparison of low-cost particulate matter sensors to measure transient events of pollution - Dataset
<p>This repository contains the data associated with the paper: Laboratory comparison of low-cost particulate matter sensors to measure transient events of pollution.</p> <p>Bulot, F.M.J.; Russell, H.S.; Rezaei, M.; Johnson, M.S.; Ossont, S.J.J.; Morris, A.K.R.; Basford, P.J.; Easton, N.H.C.; Foster, G.L.; Loxham, M.; Cox, S.J. Laboratory Comparison of Low-Cost Particulate Matter Sensors to Measure Transient Events of Pollution. <em>Sensors</em> <strong>2020</strong>, <em>20</em>, 2219.</p> <p><a href="https://doi.org/10.3390/s20082219">https://doi.org/10.3390/s20082219</a> </p> <p>It contains:</p> <p>- DHT22.csv measurements from the DHT22 humidity and temperature sensor</p> <p>- dusttrak.csv measurements from the DustTrak</p> <p>- ops.csv measurements from the OPS TSI 3330</p> <p>- sensors.csv measurement from the low-cost PM sensors</p> <p>- sensors_blank.csv measurements from the low-cost PM sensors during the blank test</p> <p> </p> <p>sensors_blank.csv contains the following variables:</p> <ul> <li>Bin1 to Bin15: particle numbers for different bin sizes reported by the Alphasense OPCR1, as defined by its user's manual available here https://www.alphasense.com/products/optical-particle-counter/</li> <li>SamplingPeriod: sampling period of the Alphasense OPCR1 in seconds</li> <li>SFR: sampling flow rate of the Alphasense OPCR1 in ml/s</li> <li>PM1, PM25, PM4, PM10: PM concentrations reported by the sensors in ug/m3.</li> <li>gr03um to gr100um: particle number concentrations for different bin sizes for the Plantower PMS5003, in particle per 100ml, as defined by its user's manual https://aqicn.org/air/view/sensor/spec/pms5003-manual_v2-3</li> <li>n05 to n10: particle number concentrations for different bin sizes for the Sensirion SPS30, in particles per cm3, as defined by its user's manual: https://www.sensirion.com/fileadmin/user_upload/customers/sensirion/Dokumente/9.6_Particulate_Matter/Datasheets/Sensirion_PM_Sensors_Datasheet_SPS30.pdf</li> <li>humidity and temperature: relative humidity (%) and temperature (Celsius) recorded by the SHT35 sensors</li> <li>sensor: sensor identifier</li> <li>site: name of the air quality monitor containing the sensors</li> <li>exp: name of the experiment considered</li> <li>source: source of PM used</li> <li>variation: peak or stable concentration</li> <li>date: date and time of the experiment</li> </ul>
Analysis scripts for the evaluation of a low-cost high-throughput plant phenotyping system
<p>Data analyses to complement "Image dataset for the evaluation of a low-cost high-throughput plant phenotyping system" (DOI: 10.5281/zenodo.5725224). "README_SetupAndAnalyses.pdf" contains instructions for setting up the high-throughput phenotyping (HTP) system and analyzing the resulting image datasets. The analyses are split into two parts. First, the automatically acquired HTP and manually acquired (DSLR) images are processed using the Python script labeled "finalGreennessAnalyses.py". The csv file labeled "labelTable.csv" is used to rename the DSLR images in terms of the date acquired and experimental conditions and must be included for the Python script to process the DSLR images. The output of the Python script includes "greennessGoProTable.txt" containing tab-delimited data regarding foliar size and greenness for each HTP image and "greennessDSLRTable.txt" containing tab-delimited data regarding foliar size and greenness for each DSLR image. The second step of the analyses includes inferential statistics (e.g., correlations and linear mixed effects modeling) and is based on the R script labeled "ghGoProAndDSLR_toPublish2.R". The csv file labeled "parAllBenches.csv" includes average solar daily light integral (solar DLI) data that were used as part of the linear mixed effects models in R.</p>
RINEX files from low-cost GNSS receivers in Wrocław, Poland; January - March, 2021
<p>Daily RINEX files with multi-GNSS (GPS, GLONASS, Galileo) observations at 30 sec. interval obtained with low-cost GNSS receiver u-blox ZED-F9P and u-blox patch antennas (except BX02 - ArduSimple survey antenna). Time period (depending on stations): 27.02.2021 - 28.03.2021.</p>
Supporting data for: Low-cost anti-mycobacterial drug discovery using engineered E. coli
<p>Supporting data for: Low-cost anti-mycobacterial drug discovery using engineered E. col</p> <p>This dataset pertains to our work developing TESEC Mtb ALR, a genetically engineered strain of E. coli expressing the enzyme ALR derived from Mtb. We used the TESEC Mtb ALR strain in a high-throughput drug screen and identified benazepril as targeted inhibitor of the ALR enzyme. We then performed additional experiments to characterize the activity of benazepril against E. coli, Mtb and purified enzymes. Finally, we tested the extensibility of the platform by constructing and screening against similar strains for additional targets: Asd, CysH, DapB, and TrpD.</p> <p>These files include growth measurements, biochemical assays and other forms of biological data. They are packaged together with scripts used to analyze the data and present them in figures. Our goal in creating this archive was to present our complete analysis pipeline in the spirit of open science. It is not intended to be a stand-alone resource. Consult the associated manuscript for protocols, units of measurement and other essential technical context.</p> <p>Our scripts were written for Python 3.8. The raw data is presented as human-readable .csv files intended to be imported as Pandas DataFrames. Some data is also packaged as Python dictionaries saved with the Pickle package.</p>
Characterisation and calibration of low-cost PM sensors at high temporal resolution to reference grade performances - dataset
<p>This repository contains the data used for the analysis of the paper "Characterisation and calibration of PM sensors at high temporal resolution to reference grade performances" submitted to Heliyon and available as a pre-print:</p> <p>Bulot, Florentin M. J. and Ossont, Steven J. and Morris, Andrew and Basford, Philip J. and Easton, Natasha H. C. and Mitchell, Hazel L. and Foster, Gavin L. and Cox, Simon J. and Loxham, Matthew, Characterisation and Calibration of Low-Cost Pm Sensors at High Temporal Resolution to Reference-Grade Performance. Available at SSRN: <a href="https://ssrn.com/abstract=4360707">https://ssrn.com/abstract=4360707</a> or <a href="http://dx.doi.org/10.2139/ssrn.4360707">http://dx.doi.org/10.2139/ssrn.4360707</a></p> <p> </p> <p>The code used to conduct the data analysis is available at <a href="https://doi.org/10.5281/zenodo.7261417">https://doi.org/10.5281/zenodo.7261417</a></p> <p> </p> <p>.</p> <p> </p> <p>The files are available in .csv and in .rds (for R) formats. For details about the measurement equipment used<br> during this study, please refer to the methods section of the paper.</p> <p>Description of the files.</p> <p>202007_to_202107_nocs - contains the data from the low-cost sensors</p> <p>It contains the following headers:<br> - "sensor" - sensor id<br> - "site" - name of the air quality monitor hosting the sensor<br> - "median_PM1" - PM1 mass concentration (ug/m3)<br> - "median_PM10" - PM10 mass concentration (ug/m3)<br> - "median_PM25" - PM25 mass concentration (ug/m3)<br> - "median_PM4" - PM4 mass concentration (ug/m3) (only available for SPS30)<br> - "median_n05" - particle number concentration (SPS30) of particles between 0.3um and 0.5um<br> - "median_n1" - particle number concentration (SPS30) of particles between 0.3um and 1um<br> - "median_n10" - particle number concentration (SPS30) of particles between 0.3um and 10um<br> - "median_n25" - particle number concentration (SPS30) of particles between 0.3um and 2.5um<br> - "median_n4" - particle number concentration (SPS30) of particles between 0.3um and 4um<br> - "median_gr03um" - particle number concentration (PMS5003) of particles >0.3um<br> - "median_gr05um" - particle number concentration (PMS5003) of particles >0.5um<br> - "median_gr100um" - particle number concentration (PMS5003) of particles >10um<br> - "median_gr10um" - particle number concentration (PMS5003) of particles >1um<br> - "median_gr25um" - particle number concentration (PMS5003) of particles >2.5um<br> - "median_gr50um" - particle number concentration (PMS5003) of particles >5um<br> - "median_pm100_cf1" - PM10 mass concentration with cf1 calibration for PMS5003<br> - "median_pm10_cf1" - PM1 mass concentration with cf1 calibration for PMS5003<br> - "median_pm25_cf1" - PM25 mass concentration with cf1 calibration for PMS5003<br> - "date" - date, format "yyyy-mm-dd HH:MM:SS GMT" </p> <p> </p> <p>df_pm_2min - contains the PM mass concentration data from the Fidas 200S.</p> <p>It contains the following headers:<br> - "PM2.5" - PM2.5 mass concentration (ug/m3) Fidas 200S<br> - "PM10" - PM10 mass concentration (ug/m3) Fidas 200S<br> - "PMtot" - PM total mass concentration (ug/m3) Fidas 200S<br> - "PM1" - PM1 mass concentration (ug/m3) Fidas 200S<br> - "date" - date, format "yyyy-mm-dd HH:MM:SS GMT" </p> <p> </p> <p>df_weather_2min - contains the weather data from the Fidas 200S</p> <p>It contains the following headers:<br> - "rh" - relative humidity (%)<br> - "dew_point_temperature" - dew point temperature (Celsius)<br> - "air_pressure" - Air pressure (hPa)<br> - "temperature" - temperature (Celsius)<br> - "date" - date, format "yyyy-mm-dd HH:MM:SS GMT"</p>
Macroporous Polymer Monoliths as a Low-Cost Bioanalytical Platform for Biopharmaceutical Glycoproteins
<p>This is data generated during my Marie Curie project. It includes the results for the synthesis of the monomers and polymerised high internal phase emulsions (polyHIPEs).</p> <p>In addition, supplementary data form a publication generated from the co-supervision of a PhD student during the course of the fellowship is also included. </p>
Ambient air ozone concentrations using metal-oxide low-cost sensors: Spain and Italy, summer 2017
<p>Ozone concentrations in ambient air collected using low-cost sensor technologies, in the framework of EU project CAPTOR. Data collected during summer 2017 in NE Spain and N Italy. Sensors are metal-oxide. Data are calibrated using multiple linear regression, and validated against official reference data from each local air quality monitoring network. More details on the calibration and data validation may be found in A. Ripoll et al. / Science of the Total Environment 651 (2019) 1166–1179.</p> <p> </p>
Ambient air ozone concentrations using metal-oxide low-cost sensors: Spain and Italy, summer 2018
<p>Ozone concentrations in ambient air collected using low-cost sensor technologies, in the framework of EU project CAPTOR. Data collected during summer 2018 in NE Spain and N Italy. Sensors are metal-oxide. Data are calibrated using multiple linear regression, and validated against official reference data from each local air quality monitoring network. More details on the calibration and data validation may be found in A. Ripoll et al. / Science of the Total Environment 651 (2019) 1166–1179.</p>
Data used in paper "A comparative study of calibration methods for low-cost ozone sensors in IoT platforms"
<p>Data used in paper "A comparative study of calibration methods for low-cost ozone sensors in IoT platforms", submitted for publication. The data consists of: (i) raw data from three nodes with four MICS 2614 metal-oxide ozone sensors deployed in Spain, summer 2017, and (ii) raw data of five alphasense OX-B431 and NO2-B43F electro-chemical sensors, four deployed in Italy and one in Austria, summers 2017 and 2018. Moreover, we have added the calibrated data using four machine learning methods: Multiple Linear Regression (MLR), K-Nearest Neighbors (KNN), Random Forest (RF) and Support Vector Regression (SVR).</p>
AirHeritage Datalake: Multi-site, Multi-season, Multi Unit dataset including Fixed and Mobile Citizen science data from networked Air Quality Low-Cost Multi-Sensors devices and reference stations
<p>This datalake comprises several datasets from <strong>37 networked low cost air quality multisensors</strong> (<strong>30</strong> <strong>mobile</strong> ENEA MONICA(tm) + <strong>7</strong> <strong>fixed</strong>) along with <strong>3</strong> (fixed) + <strong>1</strong> (mobile) <strong>reference stations</strong> operated by Campania Regional Envronmental Protection Agency. The datalake is organized in 3 main directories respectively related to fixed nodes, mobile nodes and nearby reference stations including a mobile laboratory used for colocation campaigns; each subdirectory include its own metadata description file.</p> <p>Data, curated by Energy and Data Science Laboratory of ENEA, include multi-weeks colocation periods when low cost devices have been colocated with reference stations as well as operational periods during which sensors are deployed for fixed or mobile monitoring campaigns. Data have been recorded during 2021 and 2022 in a<strong> pervasive, multi-site, multi-seasonal deployment</strong> in Portici, a densely populated small area city (4km2, 55k + inhabitants) located 7km south of Naples, Italy.</p> <p>The datalake consists in actual sensors and reference intrumentations timeseries along with metadata description files with deployment dates and location data. The dataset files include high sampling frequency raw sensor data of quality-controlled sensor network along with co-located reference stations data sets. Sensor data include electrochemical sensors data (intended target pollutants: NO2, O3, CO), Optical sensor data (PM2.5, PM10, PM1) readings along with meteorological parameters. .</p> <p>Further description of sensors and reference instruments are reported in the accompanying paper (see citation request).</p> <p>The dataset can be used for </p> <ul> <li> <strong>advanced (remote/universal/in field) data driven calibration strategies</strong> test or development including <strong>machine learning </strong>models</li> <li><strong>mobile opportunistic data fusion</strong> methods development</li> <li><strong>geomatics and data assimilation</strong> models studies</li> </ul> <p>as well as low cost sensor characterization performance studies. </p>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.