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Fig. 3 in Molecular Identification, Fatty Acid Profile and Trace Elements in a Stranded Fin Whale in Sabah (Borneo, Malaysia): Implications on Migration Routes and Trophic Ecology of Southern Fin Whales.
Fig. 3. Comparison of the percentages of fatty acid profiles for (a) SFA, (b) MUFA and (c) PUFA in the tissues of adult male (M) and female (F) southern humpback whales during the early and late migrations extracted from the results of Waugh et al. (2012), epipelagic and mesopelagic (i.e., average) fish in the South China Sea (SCS) extracted from the supplementary data of Wang et al. (2019) and the southern fin whale in the present study.
Nanotiming: single-molecule based, telomere-to-telomere DNA replication timing profiling by nanopore sequencing
<p>Dataset for the manuscript "Nanotiming: telomere-to-telomere DNA replication timing profiling by nanopore sequencing" by Theulot et al ,2024 (<span>https://doi.org/10.1038/s41467-024-55520-3</span>) related to the github repository (https://github.com/LacroixLaurent/NanoTiming)</p> <ul> <li>WT_rep3.tar.gz contains fast5 file from an experiment where yeast BT1 strain was grown for one doubling time with 5µM BrdU then DNA was sequenced on R9.4.1 ONT flowcell</li> <li>mod_mapping.bam contains the bam file resulting from the BrdU base calling with megalodon (v2.2.9) using our BT1 reference genome and our BrdU aware model for base-calling</li> <li>WT_rep3_nanoT.bed.gz contains the reads coordinates from the mod_mappings file</li> <li>WT_rep3_nanoT_alldata.rds contains the BrdU profiles for each reads of the mod_mappings file, with the BrdU signal binned in 1kb non overlaping windows</li> <li>WT_rep3_nanoT.rds contains the genomic BrdU signal profiles by 1kb non overlaping windows</li> <li>TeloLengthDataNanoT.rds contains all the telomeric sequences extracted from the experiments reported in the Figure 4 and S19 to S23 of the manuscript with the associated filtering information and nanotiming signal.</li> </ul> <p> </p>
Sonchus asper profiling
<p>The current investigation presents a two-fold approach to rediscovering the potential of Sonchus asper as a wild edible plant, both in its raw extract form and as a nano-formulated product. S. asper is commonly utilized as a food ingredient, and through HPLC-MS analysis of raw and cooked leaf extracts, 38 compounds and 6 essential amino acids were identified. The antioxidant activity and the hypoglycemic effect of non-edible leaves were demonstrated. The incorporation into liposomes maximized the health-promoting properties for potential pharmaceutical or food applications. Furthermore, the study aimed to promote the valorization of traditional dishes, and contribute to biodiversity conservation and sustainable use of S. asper, thus enhancing economic profits. In this regard, the commercialization of S. asper could: (i) contribute to improving the well-being of rural and urban communities, being S. asper a wild edible plant available at low cost, environmentally friendly, resilient, and adaptable; (ii) generate landowner economic returns.</p>
Fig. 4 in Molecular profiling of 18S rRNA reveals seasonal variation and diversity of diatoms community in the Han River, South Korea
Fig. 4. Principal component analysis (PCA) biplot showing the seasonal variation of (A) all the diatom OTU reads, (B) most frequent diatom OTU detected, sampled in March (spring), June (summer), September (autumn), and December (winter). Calculated based on the number of OTU reads in each sample. Each dot represents diatom OTU recovered in this study.
Fig. 2 in Molecular profiling of 18S rRNA reveals seasonal variation and diversity of diatoms community in the Han River, South Korea
Fig. 2. Rarefaction curves representing the numbers of Operational Taxonomic Units (OTUs) of diatoms vs. the number of tags sampled from pyrosequencing data.
Fig. 1 in Molecular profiling of 18S rRNA reveals seasonal variation and diversity of diatoms community in the Han River, South Korea
Fig. 1. Seasonal variation in water temperature and DO (A), pH and conductivity (B) and TN and TP (C), and cell counts and Chla (D) at the Seongsan Bridge of Han River, Korea.
Fig. 3 in Molecular profiling of 18S rRNA reveals seasonal variation and diversity of diatoms community in the Han River, South Korea
Fig. 3. (A) Proportion of each eukaryotic taxon (eukaryote, phytoplankton, and diatom), (B) relative abundance of phytoplankton, and (C) relative abundance of diatom taxa. These data were calculated by using 18S rRNA pyrosequencing reads. Taxonomic identity of "others" represents taxa with less than 1% composition of total reads.
Gwalior, Madhya Pradesh. Telikā Mandir, moulding profile.
<p>Gwalior, Madhya Pradesh. Telikā Mandir, moulding profile. As documented 1981.</p>
Compound profiling matrices extracted from screening data
<p>Compound profiling matrices record assay results for compound libraries tested against panels of targets. In addition to their relevance for exploring structure-activity relationships, such matrices are of considerable interest for chemoinformatic and chemogenomic applications. For example, profiling matrices provide a valuable data resource for the development and evaluation of machine learning approaches for multi-task activity prediction. However, experimental compound profiling matrices are rare in the public domain. Although they are generated in pharmaceutical settings, they are typically not disclosed. Herein, we present an algorithm for the generation of large profiling matrices, for example, containing more than 100,000 compounds exhaustively tested against 50 to 100 targets. The new methodology is a variant of bi-clustering algorithms originally introduced for large-scale analysis of genomics data. Our approach is applied here to assays from the PubChem BioAssay database and generates profiling matrices of increasing assay or compound coverage by iterative removal of entities that limit coverage. Weight settings control final matrix size by preferentially retaining assays or compounds. In addition, the methodology can also be applied to generate matrices enriched with active entries representing above-average assay hit rates.</p>
Nicosia, Cyprus. Bedesten, nave vaulting, moulding profile.
<p>Nicosia, Cyprus. Bedesten, nave vaulting, moulding profile. As documented from fallen fragment inside building in 1981 (drawn in 2018).</p>
Results from Voigt profile fitting from Hiss et al. 2018
<p>The file "cutoff_fitting.h5 " contains a subset of the joint distribution of the b-N distribution cutoff fitting parameters (b_0, Gamma), the joint distributions of the calibration values of the logT_0 - logb_0 relation (D, C), the distribution of the calibration factor of the (gamma-1) - (Gamma-1) relation (kappa) as well as our final joint distributions of the parameters of the temperature-density relation (T_0, gamma) for all redshifts presented in the paper.</p> <p>The README file gives basic instructions. The file read_example.py shows step by step how to read this information at a particular redshift.</p>
Structural modelling results to accompany the paper "Uncommon mutational profiles of metastatic colorectal cancer detected during routine genotyping using next generation sequencing: an update"
<p>This repository contains the results of modelling missense mutants in KRAS, NRAS and BRAF observed in our study in the corresponding protein structures. Modelling was performed using FoldX.</p>
Metabolomic Profiling of Zinc Accumulating Prostate Cancer Cells: dataset of metabolomics and transctiptomics
<p>In this study, we focused on the metabolism of prostate cancer cells forced to accumulate zinc. Because levels of metabolites involved in Krebs and methionine cycle can participate in non-metabolic processes such as changes in gene expression, a panel of 371 genes connected with key steps of carcinogenesis was designed and expression levels of these genes were assessed to determine, which pathways are changed due to the long-term zinc treatment.</p> <p>As a model of prostate cancerogenesis, wild-type and zinc accumulating cell lines PNT1A, 22Rv1, and PC-3 were used. Metabolite profiles were examined using liquid chromatography triple quadrupole mass spectrometry. Quantification of total intracellular zinc was performed by atomic absorption spectrometry and gene expression investigated by cDNA microarray. </p> <p>For description of creation of zinc-resistant cell lines see Holubova et al, Metallomics 2014, DOI 10.1039/C4MT00065J</p> <p> </p> <p><strong>Description of dataset</strong></p> <p>Total 6 files are included:</p> <p><em>Krebs.metabolites.csv</em>: table of metabolomic data (in ppm) of wild type/untreated/zinc-resistant cells.</p> <p><em>Krebs.metabolites.medium.csv</em>: table of metabolomic data (in fold change compared to medium) in cultivation media of abovementioned cells.</p> <p><em>RNA_array_fold_p.csv</em>: processed results of microarray displayed as mean log2 fold change (resistant - WT) and p level</p> <p><em>RNA_array_raw_22Rv1.csv</em>, <em>RNA_array_raw_PC-3.csv, RNA_array_raw_PNT1A.csv</em> raw data from microarray reader for WT and resistant cells.</p>
Datasets for 'Reducing variability in along-tract analysis with diffusion profile realignment'
<p>Datasets we used in the manuscript 'Reducing variability in along-tract analysis with diffusion profile realignment'.</p> <p>Additional code available at https://github.com/samuelstjean/dpr</p>
The Impact of White Dwarf Luminosity Profiles on Oscillation Frequencies
<p>MESA inlists associated with <a href="https://ui.adsabs.harvard.edu/#abs/2018ApJ...867L..30T/abstract">The Impact of White Dwarf Luminosity Profiles on Oscillation Frequencies</a></p> <p> </p>
Ridge Evolution, Profile View
<p>The evolution of a simulated three dimensional sea ice pressure ridge is shown in profile. The left plate is 100 m x 50 m x 0.4 m and the right plate is 5 m x 50 m x 1 m. The left plate is moving at 2 cm/s to the right. The simulation shows 600 s of convergence with the left edge of the plate moving a total of 12 m. The pressure, in Pa, felt by each grain is calculated for coloration to show regions of compression, tension, and the transmission of stress through the material. </p>
Sempa et al. 2019 - A Retrospective audit of treatment outcomes, side-effect profiles and default and mortality rates of HIV/AIDS patients at the antiretroviral clinic at Pretoria Academic Hospital.
<p>The comprehensive demographic and long-term treatment data of the first, consecutive, 963 patients older than 18 years of age who presented for ART at the Tshwane District Hospital in Gauteng, South Africa during 2004 and 2005 were selected for analysis. All patients started ART after 2004 as part of the South African national HIV treatment plan and were treated according to the National Department of Health HIV guidelines (2004) operative at the time, i.e. eligibility for ART was CD4 <200 cells/µL or WHO stage 4 disease regardless of CD4 count. Treatment was initiated using a standardized triple-drug regimen consisting of two nucleoside reverse transcriptase inhibitors, mostly d4T and 3TC, and one non-nucleoside reverse transcriptase inhibitor, either NVP or EFV. CD4 and HIV-1 VL monitoring was performed at treatment initiation ‘baseline’ and then 6-monthly, according to the national protocol. Demographic, anthropometric, clinical, ART and 5-year longitudinal treatment response data were collected. Excluded all second-line ART visits for all patients who were switched to second-line therapy.</p>
Processed Hi-C contact matrices for "Single-cell DNA replication profiling identifies spatiotemporal developmental dynamics of chromosome organization"
<p>Processed Hi-C interaction matrices (iterative correction) saved in .hic format (40kb bins).</p> <p>.hic files were generated by juicer pipeline using processed Hi-C interaction matrices.</p> <p>Only <em>cis </em>interactions were available.</p> <p>To extract the data, please see </p> <p>https://github.com/aidenlab/juicer/wiki/Data-Extraction</p>
Vertical profiles and integrated time series of bird density and flight speed vector (19.09.2016-10.10.2016)
<p><strong>Description</strong></p> <p>This dataset contains the vertical profiles and integrated time series of bird density and flight speed (NS and EW) used in Nussbaumer (2019) [open access: <a href="https://www.mdpi.com/2072-4292/11/19/2233">https://www.mdpi.com/2072-4292/11/19/2233</a>]. Data are stored in a JavaScript Object Notation (JSON) file for each radar, with the following structure:</p> <pre><code>{ "name" : "bejab", //code name of the radar (http://eumetnet.eu/wp-content/themes/aeron-child/observations-programme/current-activities/opera/database/OPERA_Database/index.html) "lat" : 51.1917, //Latitude "lon" : 3.0642, //Longitude "height" : 50, //Height of the radar antenna [m] a.s.l. "maxrange" : 25, //Maximum range [km] used for profile "alt" : [100, 300,...], "time" : ["19-Sep-2016 00:00:00", "19-Sep-2016 00:05:00",...], "dens" : [[...],...], //Vertical profile of bird density [1/km3] "u" : [[...],...], //Vertical profile of bird flight speed in East(+)/West(-) [m/s] "v" : [[...],...], //Vertical profile of bird flight speed in North(+)/South(-) [m/s] "denss" : [...], //Integrated profile of bird density [1/km2] "us" : [...], //Integrated profile of bird flight speed in East(+)/West(-) [m/s] "vs" : [...], //Integrated profile of bird flight speed in North(+)/South(-) [m/s] }</code></pre> <p> </p> <p><strong>Procedure</strong></p> <p>The raw data are downloaded on the <a href="http://enram.github.io/data-repository/">ENRAM repository</a>,( see Dokter (2011) and (2019) for more details) and processed according to the procedure described below.</p> <ol> <li>Of the 84 radars contributing data during the study period, 11 radars are discarded because of their poor quality due to S-band radar type, poor processing or large gaps (temporal or altitude cut). The same radars were removed in Nilsson et al. (2019).In addition, the 4 radars from Bulgaria and Portugal were excluded because of their geographic isolation.</li> <li>The full vertical profile was discarded when rain was present at any altitude bin. A dedicated MATLAB GUI was used to visualise the data and manually set bird densities to “not-a-number” in such cases. </li> <li>Zones of high bird densities can sometimes be incorrectly eliminated in the raw data. To address this, Nilsson et al. (2019) excluded problematic time or height ranges from the data. Here, in order to keep as much data as possible, the data was manually edited to replace erroneous data either with “not-a-number”, or by cubic interpolation using the dedicated MATLAB GUI.</li> <li>Due to ground scattering,the lower altitude layers are sometimes contaminated by errors or excluded in the raw data. We vertically interpolated bird density by copying the first layer without error into to the lower ones. This approach is relatively conservative as bird migration intensity usually decreases with height in the absence of obstacles, and more so in autumn (Bruderer, 2018)</li> <li>The vertical profiles are vertically integrated from the radar altitude and up to 5000 m asl.</li> <li>The data recorded during daytime are excluded. Daytime is defined at each radar by the civil dawn and dusk (6° below horizon).</li> <li>Finally, the data of 10 radars with high temporal resolution (5-10minutes) was down-sampled to 15 minutes to preserve a balanced representation of each radar.</li> </ol> <p>The resulting cleaned vertical-integrated time series of nocturnal bird density can be viewed in vp_corrected.zip.</p> <p>More details and illustrations are available in Nussbaumer (2019) [open access: <a href="https://www.mdpi.com/2072-4292/11/19/2233">https://www.mdpi.com/2072-4292/11/19/2233</a>], </p> <p><strong>Acknowledgement</strong></p> <p>We acknowledge the <a href="http://eumetnet.eu/activities/observations-programme/current-activities/opera/">European Operational Program for Exchange of Weather Radar Information (EUMETNET/OPERA)</a> for providing access to European radar data, faciliated through a research-only license agreement between EUMETNET/OPERA members and <a href="http://enram.eu/">ENRAM</a>.</p> <p> </p> <p><strong>References</strong></p> <p>Bruderer, B.; Liechti, F. Variation in density and height distribution of nocturnal migration in the south of israel. <em>Israel Journal of Zoology</em> <strong>1995</strong>, <em>41</em>, 477–487. <a href="http://doi.org/10.1080/00212210.1995.10688815">doi:10.1080/00212210.1995.10688815</a>.</p> <p>Dokter A. M. , F. Liechti, H. Stark, L. Delobbe, P. Tabary, and I. Holleman, “Bird migration flight altitudes studied by a network of operational weather radars,” <em>J. R. Soc. Interface</em>, vol. 8, no. 54, pp. 30–43, Jan. <strong>2011</strong>. <a href="http://doi.org/10.1098/rsif.2010.0116">doi:10.1098/rsif.2010.0116</a></p> <p>Dokter A. M. , P. Desmet, J. H. Spaaks, S. van Hoey, L. Veen, L. Verlinden, C. Nilsson, G. Haase, H. Leijnse, A. Farnsworth, W. Bouten, and J. Shamoun‐Baranes, “bioRad: biological analysis and visualization of weather radar data,” <em>Ecography </em>(Cop.)., vol. 42, no. 5, pp. 852–860, May <strong>2019</strong>. <a href="http://doi.org/10.1111/ecog.04028">doi: 10.1111/ecog.04028</a></p> <p>Nilsson, C.; Dokter, A.M.; Verlinden, L.; Shamoun-Baranes, J.; Schmid, B.; Desmet, P.; Bauer, S.; Chapman, J.; Alves, J.A.; Stepanian, P.M.; Sapir, N.;Wainwright, C.; Boos, M.; Górska, A.; Menz, M.H.M.; Rodrigues, P.; Leijnse, H.; Zehtindjiev, P.; Brabant, R.; Haase, G.; Weisshaupt, N.; Ciach, M.; Liechti, F. Revealing patterns of nocturnal migration using the European weather radar network. <em>Ecography </em><strong>2019</strong>, <em>42</em>, 876–886. <a href="http://doi.org/10.1111/ecog.04003">doi:10.1111/ecog.04003</a>.</p> <p>Nussbaumer R., L. Benoit, G. Mariethoz, F. Liechti, S. Bauer, and B. Schmid, “A Geostatistical Approach to Estimate High Resolution Nocturnal Bird Migration Densities from a Weather Radar Network,” <em>Remote Sens</em>., vol. 11, no. 19, p. 2233, Sep. <strong>2019</strong>. <a href="https://www.mdpi.com/2072-4292/11/19/2233">doi: 10.3390/rs11192233</a></p> <p> </p> <p> </p>
Shaping photovoltaic array output to align with changing wholesale electricity price profiles
<p>This repository includes python scripts and input/output data associated with the following publication:</p> <p>[1] Brown, P.R.; O'Sullivan, F. "Shaping photovoltaic array output to align with changing wholesale electricity price profiles." Applied Energy 2019. <a href="http://doi.org/10.1016/j.apenergy.2019.113734">https://doi.org/10.1016/j.apenergy.2019.113734</a></p> <p>Please cite reference [1] for full documentation if the contents of this repository are used for subsequent work.</p> <p>Some of the scripts and data are also used in the following working paper:</p> <p>[2] Brown, P.R.; O'Sullivan, F. "Spatial and temporal variation in the value of solar power across United States electricity markets". Working Paper, MIT Center for Energy and Environmental Policy Research. 2019. <a href="http://ceepr.mit.edu/publications/working-papers/705">http://ceepr.mit.edu/publications/working-papers/705</a></p> <p>All code is in python 3 and relies on a number of dependencies that can be installed using pip or conda.</p> <p><strong>Contents</strong></p> <ul> <li>pvvm.zip : Python module with functions for modeling PV generation, calculating PV revenues and capacity factors, and optimizing PV orientation.</li> <li>notebooks.zip : Jupyter notebooks, including: <ul> <li>pvvm-pvtos-data.ipynb: Example scripts used to download and clean input LMP data, determine LMP node locations, and reproduce some figures in reference [1]</li> <li>pvvm-pvtos-analysis.ipynb: Example scripts used to perform the calculations and reproduce some figures in reference [1]</li> <li>pvvm-pvtos-plots.ipynb: Scripts used to produce additional figures in reference [1]</li> <li>pvvm-example-generation.ipynb: Example scripts demonstrating the usage of the PV generation model and orientation optimization</li> </ul> </li> <li>html.zip : Static images of the above Jupyter notebooks for viewing without a python kernel</li> <li>data.zip : Day-ahead and real-time nodal locational marginal prices (LMPs) for CAISO, ERCOT, MISO, NYISO, and ISONE. <ul> <li>At the time of publication of this repository, permission had not been received from PJM to republish their LMP data. If permission is received in the future, a new version of this repository will linked here with the complete dataset.</li> </ul> </li> <li>results.zip : Simulation results associated with reference [1] above, including modeled revenue, capacity factor, and optimized orientations for PV systems at all LMP nodes</li> </ul> <p><strong>Data terms and usage notes</strong></p> <ul> <li>ISO LMP data are used with permission from the different ISOs. Adapting the MIT License (<a href="http://opensource.org/licenses/MIT">https://opensource.org/licenses/MIT</a>), "The data are provided 'as is', without warranty of any kind, express or implied, including but not limited to the warranties of merchantibility, fitness for a particular purpose and noninfringement. In no event shall the authors or sources be liable for any claim, damages or other liability, whether in an action of contract, tort or otherwise, arising from, out of or in connection with the data or other dealings with the data." Copyright and usage permissions for the LMP data are available on the ISO websites, linked below.</li> <li>ISO-specific notes: <ul> <li>CAISO data from <a href="http://oasis.caiso.com/mrioasis/logon.do">http://oasis.caiso.com/mrioasis/logon.do</a> are used pursuant to the terms at <a href="http://www.caiso.com/Pages/PrivacyPolicy.aspx#TermsOfUse">http://www.caiso.com/Pages/PrivacyPolicy.aspx#TermsOfUse</a>.</li> <li>ERCOT data are from <a href="http://www.ercot.com/mktinfo/prices">http://www.ercot.com/mktinfo/prices</a>.</li> <li>MISO data are from <a href="http://www.misoenergy.org/markets-and-operations/real-time--market-data/market-reports/">https://www.misoenergy.org/markets-and-operations/real-time--market-data/market-reports/</a> and <a href="https://www.misoenergy.org/markets-and-operations/real-time--market-data/market-reports/market-report-archives/">https://www.misoenergy.org/markets-and-operations/real-time--market-data/market-reports/market-report-archives/</a>.</li> <li>PJM data were originally downloaded from <a href="https://www.pjm.com/markets-and-operations/energy/day-ahead/lmpda.aspx">https://www.pjm.com/markets-and-operations/energy/day-ahead/lmpda.aspx</a> and <a href="https://www.pjm.com/markets-and-operations/energy/real-time/lmp.aspx">https://www.pjm.com/markets-and-operations/energy/real-time/lmp.aspx</a>. At the time of this writing these data are currently hosted at <a href="https://dataminer2.pjm.com/feed/da_hrl_lmps">https://dataminer2.pjm.com/feed/da_hrl_lmps</a> and <a href="https://dataminer2.pjm.com/feed/rt_hrl_lmps">https://dataminer2.pjm.com/feed/rt_hrl_lmps</a>.</li> <li>NYISO data from <a href="http://mis.nyiso.com/public/">http://mis.nyiso.com/public/</a> are used subject to the disclaimer at <a href="https://www.nyiso.com/legal-notice">https://www.nyiso.com/legal-notice</a>.</li> <li>ISONE data are from <a href="https://www.iso-ne.com/isoexpress/web/reports/pricing/-/tree/lmps-da-hourly">https://www.iso-ne.com/isoexpress/web/reports/pricing/-/tree/lmps-da-hourly</a> and <a href="https://www.iso-ne.com/isoexpress/web/reports/pricing/-/tree/lmps-rt-hourly-final">https://www.iso-ne.com/isoexpress/web/reports/pricing/-/tree/lmps-rt-hourly-final</a>. The Material is provided on an "as is" basis. ISO New England Inc., to the fullest extent permitted by law, disclaims all warranties, either express or implied, statutory or otherwise, including but not limited to the implied warranties of merchantability, non-infringement of third parties' rights, and fitness for particular purpose. Without limiting the foregoing, ISO New England Inc. makes no representations or warranties about the accuracy, reliability, completeness, date, or timeliness of the Material. ISO New England Inc. shall have no liability to you, your employer or any other third party based on your use of or reliance on the Material.</li> </ul> </li> <li>Data workup: LMP data were downloaded directly from the ISOs using scripts similar to the pvvm.data.download_lmps() function (see below for caveats), then repackaged into single-node single-year files using the pvvm.data.nodalize() function. These single-node single-year files were then combined into the dataframes included in this repository, using the procedure shown in the pvvm-pvtos-data.ipynb notebook for MISO. We provide these yearly dataframes, rather than the long-form data, to minimize file size and number. These dataframes can be unpacked into the single-node files used in the analysis using the pvvm.data.copylmps() function.</li> </ul> <p><strong>Code license and usage notes</strong></p> <ul> <li>Code (*.py and *.ipynb files) is provided under the <a href="https://opensource.org/licenses/MIT">MIT License</a>, as specified in the pvvm/LICENSE file.</li> <li>Updates to the code, if any, will be posted in the non-static repository at <a href="https://github.com/patrickbrown4/pvvm_pvtos">https://github.com/patrickbrown4/pvvm_pvtos</a>. The code in the present repository has the following version-specific dependencies: <ul> <li>matplotlib: 3.0.3</li> <li>numpy: 1.16.2</li> <li>pandas: 0.24.2</li> <li>pvlib: 0.6.1</li> <li>scipy: 1.2.1</li> <li>tqdm: 4.31.1</li> </ul> </li> <li>To use the NSRDB download functions, modify the "settings.py" file to insert a valid NSRDB API key, which can be requested from <a href="https://developer.nrel.gov/signup/">https://developer.nrel.gov/signup/</a>. Locations can be specified by passing latitude, longitude floats to pvvm.data.downloadNSRDBfile(), or by passing a string googlemaps query to pvvm.io.queryNSRDBfile(). To use the googlemaps functionality, request a googlemaps API key (<a href="https://developers.google.com/maps/documentation/javascript/get-api-key">https://developers.google.com/maps/documentation/javascript/get-api-key</a>) and insert it in the "settings.py" file.</li> <li>Note that many of the ISO websites have changed in the time since the functions in the pvvm.data module were written and the LMP data used in the above papers were downloaded. As such, the pvvm.data.download_lmps() function no longer works for all ISOs and years. We provide this function to illustrate the general procedure used, and do not intend to maintain it or keep it up to date with the changing ISO websites. For up-to-date functions for accessing ISO data, the following repository (no connection to the present work) may be helpful: <a href="https://github.com/catalyst-cooperative/pudl">https://github.com/catalyst-cooperative/pudl</a>.</li> </ul>
ScienceDex guides
Understand access before you commit
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.