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Leaf spectroscopy and active fluorescence datasets for early drought and nitrogen stress diagnosis in tomato
<p>The dataset contains different plant physiological parameters collected during a 14-day stress and recovery experiment on tomato (<em>Solanum lycopersicum</em> L. cv Moneymaker) plants, undergoing a nitrogen deficiency, drought or control treatment. </p> <p>A full description of the experiment, together with the scientific results, is published by Pescador-Dionisio et al. (2024), and can be found through: <a href="https://doi.org/10.1111/nph.20253">https://doi.org/10.1111/nph.20253.</a></p> <p>The goal of the dataset collection was to obtain a non-invasive proximal sensing dataset at leaf level (reflectance, transmittance, upward and downward fluorescence), in parallel to gas exchange and active fluorescence measurements. The leaf spectroscopy dataset was further processed by a pigment spectral unmixing algorithm according to Van Wittenberghe et al. (2024), to calculate fluorescence quantum efficiency (<em><strong>FQE</strong></em>) and effective absorbance (<strong><em>A_eff</em></strong>) changes associated to the activation of regulated heat dissipation (<strong><em>A_eff_535_Xan</em></strong>). The latter absorption feature is linked to the xanthophyll ('<strong>Xan</strong>') absorption in the 500-600 nm range, which is modelled by the sum of three Gaussians. For a full description of this feature, see Van Wittenberghe et al. (2021).</p> <p>Gas exchange and active fluorescence measurements were carried out with a LI-6400 portable photosysthesis system (LI-COR Biosciences, Lincoln, USA) equipped with a 6400-40 leaf chamber fluorometer. Steady-state measurements were done at 300 and 1000 μmol m−2 s−1 ('<strong><em>PAR300</em></strong>' and '<em><strong>PAR1000</strong></em>'), i.e. growing light conditions and light saturating conditions. Light response curves were taken on different days. Common fluorescence parameters (e.g., <em><strong>Fv/Fm, Fo, Fm, NPQ, YNO, YNPQ</strong></em>) are provided together with 'sustained' and reversible' NPQ parameters calculated according Porcar-Castell (2011).</p> <p>Leaf spectroscopy and active steady-state fluorescence measurements were performed on the same measuring days ('<em><strong>d0</strong></em>', '<em><strong>d2</strong></em>', '<em><strong>d4</strong></em>', '<em><strong>d7</strong></em>', '<em><strong>d14</strong></em>') and on the same leaf, both at 300 and 1000 μmol m−2 s−1 ('<em><strong>PAR300</strong></em>' and '<em><strong>PAR1000</strong></em>'), taking into account an adaptation time. We used a LED light source and several filters, placed in front of a FluoWat leaf clip, which was connected to two high-performance VIS-NIR spectroradiometers (QEPRO, Ocean Insight Inc., Orlando, Florida, USA). The spectroscopy measurements are presented in the Matlab structures for each measuring day, e.g. "<strong><em>2023_d0_Leaf_Spec_Tomato_Stress.mat</em></strong>".</p> <p>The outputs of the pigment spectral fitting code are presented by Matlab structures, e.g. "<strong><em>2023_d0_Leaf_Fitting_Tomato_Stress.mat</em></strong>", which contains the effective absorbance fitting (<strong><em>A_eff</em></strong>) of each pigment (<strong>Chl a, Chl b, Carotene-b, Anthocyanins, and Xanthophylls</strong>) for the wavelength range [500-780] nm, the absorbed photosynthetically active radiation by Chlorophyll a ('<em><strong>APAR_Chla</strong></em>') for the wavelength range [400-800] nm, and the fluorescence quantum efficiency, calculated as the ratio of the emitted fluorescence photons and the flux of photons absorbed by Chlorophyll a. </p> <p>Additional metadata from HPLC photosynthetic pigment analyses, xanthophyll-related enzyme expression, biomass and total content of elemental nitrogen are provided.</p> <p>Please follow the README files for more detailed information.</p> <p> </p>
Fig. 16 in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 16. Male representatives of three subfamilies. A–B. Formica wheeleri, Formicinae (U.S.A., CASENT0173024, A. Nobile). C–D. Rhytidoponera, Ectatomminae, ectaheteromorph clade (Australia, CASENT0004610, A. Nobile). E–F. Pogonomyrmex rastratus (Argentina, CASENT0172673, A. Nobile). Scale bars: A, C = 0.5 mm, B, D, F = 1.0 mm, E = 0.2 mm.
Fig. 9 in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 9. Apomyrma CD01, male, photomicrographs. A. Forewing. B. Hindwing. C. Abdominal sternum IX, ventral view. D. Genital capsule, dorsal view. E. Genital valves, slightly splayed and without cupula, ventral view. F. Genital capsule, lateral view. G. Volsella and paramere, mesal view. H. Penisvalva in situ, mesal view. Scale bars: A–B = 0.5 mm, C–H = 0.1 mm. Abbreviations: see Material and Methods.
Fig. 10 in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 10. Representative males of Leptanillinae, lateral view A. Protanilla "TH01" (Thailand, CASENT0119776, A. Nobile), arrow indicates loss of abdominal segment II petiolation. B. Protanilla "TH03" (Thailand, CASENT0119791, E. Prado). C. Leptanilla swani (Australia, CASENT0172318, A. Nobile). D. Protanilla sp. (Indonesia, CASENT0178838, A. Nobile), arrow indicates basolateral basimeral process. E. Scyphodon sp. (Indonesia, MCZ155112w, A. Nobile). F. Noonilla sp., used with permission from Petersen (1968). Scale bars: A, C, E–F = 0.2 mm, D = 0.5 mm, B = 1.0 mm.
Fig. 12 in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 12. Martialis heureka Rabeling & Verhaagh, 2008, male, wing photomicrographs and genitalia illustrations, genital membranes not shown. A. Forewing. B. Hindwing. C. Abdominal sternum IX, ventral view. D. Genital capsule, dorsal view. E. Genital capsule, ventral view. F. Genital capsule, lateral view. G. Volsella and paramere, mesal view. H. Penisvalva in situ, mesal view. Scale bars: A–B = 0.5 mm, C–H = 0.1 mm. Abbreviations: see Material and Methods.
Fig. 15 in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 15. Male representatives of three subfamilies. A, D. Frontal view. B–C, E. Lateral view. — A–B. Pseudomyrmex holmgreni, Pseudomyrmecinae (Paraguay, CASENT0173758, A. Nobile). C. Aneuretus simoni, Aneuretinae, used with permission from Wilson et al. (1956). D–E. Technomyrmex difficilis, Dolichoderinae (Madagascar, CASENT0049968, A. Nobile). Scale bars: A, D = 0.2 mm, B = 1.0 mm, E = 0.5 mm, no scale available for C.
Fig. 14 in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 14. Male representatives of three subfamilies. A, C, E. Frontal view. B, D, F. Lateral view. — A–B. Proceratium creek, Proceratiinae (U.S.A., CASENT010441, A. Nobile). C–D. Acanthostichus, Dorylinae (French Guiana, CASENT0056970, A. Nobile). E–F. Myrmecia chasei, Myrmeciinae (Australia, CASENT0903663, W. Ericson). Scale bars: A, C = 0.2 mm, B, E = 0.5 mm, D = 1.0 mm, E = 2.0 mm.
Fig. 4. Male morphology. A–C. Abdominal sternum IX in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 4. Male morphology. A–C. Abdominal sternum IX in ventral view. B. Oblique. D–E. Petiole in lateral view. F. Forewing in dorsal view. G–H. Propodeum in lateral view. — A. Aenictogiton indet. (Zambia, CASENT0106126, M. Branstetter). B. Cerapachys "parasyscia" lineage (Kenya, B. Boudinot). C. Emeryopone buttelreepeni (Thailand, CASENT0278779, B. Boudinot). D. Paraponera clavata (?Panama, B. Boudinot). E. Cerapachys lividus (Madagascar, CASENT0138502, D. Raharinjanahary). F. Phaulomyrma indet. (Thailand, UCRENT150358, A. Nobile). G. Leptanillinae indet. (Thailand, CASENT0156249, B. Boudinot); arrow indicates dorsal margin of petiolar foramen. H. Adelomyrmex dentivagans; arrow indicates propodeal lobe. All scale bars = 0.2 mm, except D–E = 1.0 mm.
Fig. 11 in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 11. Martialis heureka Rabeling & Verhaagh, 2008, male, photomicrographs. A. Head, frontal view. B. Head, anteroventral oblique view. C. Body, lateral view. D. Body, dorsal view. Scale bars: A–B = 0.2 mm, C–D = 0.5 mm.
Fig. 8 in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 8. Apomyrma CD01, male, photomicrographs (CASENT0086073, E. Prado). A. Head, frontal view. B. Body, lateral view. C. Body, dorsal view. Scale bars: A = 0.2 mm, B–C = 0.5 mm.
Fig. 2 in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 2. Pterothoracic venter morphology of representative hymenopterans. A. Tenthredinidae, female. B. Polistes (Vespidae), worker. C. Paraponera clavata gyne (Paraponerinae, Formicidae). Scale bars = 1.0 mm. Abbreviations: see Material and Methods.
Fig. 13 in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 13. Male representatives of three subfamilies. A, C, E. Frontal view. B, D, F. Lateral view. — A–B. Tatuidris tatusia, Agroecomyrmecinae (Panama, CASENT0178870, E. Prado). C–D. Paraponera clavata, Paraponerinae (Guyana, CASENT0902407, R. Perry). E–F. Pseudoponera stigma, Ponerinae (Paraguay, CASENT0178182, A. Nobile). Scale bars: A = 0.1 mm, B = 0.5 mm, C, F = 1.0 mm, D = 2.0 mm, E = 0.2 mm.
Fig. 7. A–B. Forewing. A. Ventral view, gyne. B. Dorsal view, male. C–D in Contributions to the knowledge of Formicidae (Hymenoptera, Aculeata): a new diagnosis of the family, the first global male-based key to subfamilies, and a treatment of early branching lineages
Fig. 7. A–B. Forewing. A. Ventral view, gyne. B. Dorsal view, male. C–D. Mesosoma, lateral view, male. E–F. Paramere, lateral view, male. — A. Aneuretus simoni (Sri Lanka, CASENT0172259, A. Nobile). B. Nylanderia vividula (U.S.A., CASENT0058918, A. Nobile). C. Apomyrma stygia (Central African Republic, CASENT0086073, E. Prado). D. Anochetus boltoni (Madagascar, CASENT0063847, A. Nobile). E. Dolichoderus validus (Costa Rica, INB0003662427, B. Boudinot). F. Formica pacifica (U.S.A., JTLC000006350, B. Boudinot). Scale bars: A–C, E–F = 0.5 mm, D = 1.0 mm.
Fig. 1 in Crural bases position as a structural criterion for supraspecific diagnosis of Early Jurassic zeilleriid brachiopods
Fig. 1. Selected specimens of the zeilleriid brachiopods in dorsal (A –K), lateral (A –K), and anterior (A –K) views. A, E–H. Pliensbachian, Eastern 1 1 2 2 3 3 Subbetic (South-East Spain). A. Securina oxygonia (Uhlig, 1879), DCTMA-UA I-XII-8-2. E. Bakonyithyris gastaldii (Parona, 1880), JdC O-VI-SE-3-2. F. Zeilleria aff. venusta (Uhlig, 1889), JdC O-IV-SE-4-8. G. Zeilleria mutabilis (Oppel, 1861), JdC I-XI-17-10. H. Zeilleria batilla (Geyer, 1889), JdC O-VI-SE-Ba-4. B–D. Upper Sinemurian–Lower Pliensbachian, Eastern Subbetic (South-East Spain). B. Securina securiformis (Gemmellaro, 1874), DCTMA-UA SPel-Bol-1-SSe-2. C. Securina plicata (Geyer, 1889), DCTMA-UA SF-1-M1-SP-21. D. Securina partschi (Oppel, 1861). DCTMA-UA SPel-Bol-Ca-SPa-2. I. Neozeilleria anglica (Oppel, 1856), DPUCM Fz.148.1, Lower Aalenian, Iberian Range (North-East Spain). J. Plesiothyris verneuili (Deslongchamps, 1863) DPUCM P.Ve-Cr-1, Pliensbachian, Iberian Range (North-East Spain). K. Aulacothyris resupinata (Sowerby, 1816), DPUCM 1-Ar.52, Lower Toarcian, Iberian Range (North-East Spain).
Fig. 2 in Crural bases position as a structural criterion for supraspecific diagnosis of Early Jurassic zeilleriid brachiopods
Fig. 2. Synthetic scheme of the crural bases position patterns observed in the Zeilleriidae genera analysed in this paper. A. Zeilleria-type. B. Bakonyithyris-type. C. Securina-type.
ALAMEDA Data: Bridging the Early Diagnosis and Treatment Gaps of Brain Diseases (Parkinson's Disease, Multiple Slerosis and Stroke)
<p><strong>ALAMEDA</strong> is an Horizon 2020 Research and Innovation project that aims to bridge the early diagnosis and treatment gap of brain diseases via smart, connected, proactive and evidence-based technological interventions. Its vision is to research and prototype new generation Artificial Intelligence (AI) systems to support brain disorders patients' healthcare, focusing on Parkinson's Disease (PD), Multiple Sclerosis (MS) and Stroke.</p> <p>To this end, three (one for each disease) small scale validation pilots were performed in real world settings. Throughout these pilots, various types of data, such as accelerometer, gyroscopic, heart rate, etc., were collected via smart wearable sensors from the patients enrolled. The smart devices that were employed include: a Fitbit smartwatch, a GENEActiv smart bracelet, Novel Loadsol insole sensors and a prototype smart belt with triaxial accelerometers and gyroscopes embedded. Moreover, the patients underwent several clinical assessments and filled in numerous both disease-specific and non-disease-specific questionnaires.</p> <p>In this record, both raw and processed sensory data are combined with both clinical and patient reported outcomes (PROs) to form different disease-specific datasets. More specifically:</p> <ul> <li>For <strong>Parkinson's disease</strong>: Three datasets are provided (one for tremor detection, one for dyskinesia detection, and one for Hoehn & Yahr score estimation) alongside the vertical ground reaction force recordings.</li> <li>For <strong>Multiple Sclerosis</strong>: Two datasets are provided (one for Expanded Disability Status Scale (EDSS) scores classification and one that accumulates clinical data and individual scores from various MS-related questionnaires) alongside the vertical ground reaction force and the smart belt recordings.</li> <li>For <strong>Stroke</strong>: Two datasets are provided (one for rehabilitation exercises' recognition and one for walking classification, both with and without manual annotations) alongside the smart belt recordings.</li> </ul> <p>More information about the datasets provided can be found in the respective READ ME files that are included in the current record.</p>
Characterizing Metabolic Alterations in Early-stage chronic kidney disease (CKD) patients: A Pathway for Improved Diagnosis and Personalized Treatment.
<p>The raw NMR data that I have uploaded contains the final concentration results that have been used for this study.</p>
AsdKB: A Chinese Knowledge Base for the Early Screening and Diagnosis of Autism Spectrum Disorder
<p><strong>Instance</strong></p> <ul> <li>Instance triples</li> </ul> <p><strong>Mapping</strong></p> <ul> <li>mapping.owl: ontology mapping to UMLS and ADAR</li> </ul> <p><strong>Ontology</strong></p> <ul> <li>ontology.owl: AsdKB ontology</li> </ul> <p><strong>For more details, please refer to <a href="https://github.com/SilenceSnake/ASDKB">http://w3id.org/asdkb</a></strong></p>
Multimodal Fusion of Liquid Biopsy and CT Enhances Differential Diagnosis of Early-stage Lung Adenocarcinoma
<p>This research explores the potential of multimodal fusion for the differential diagnosis of early-stage lung adenocarcinoma (LUAD) (tumor sizes < 2 cm). It combines liquid biopsy biomarkers, specifically extracellular vesicle long RNA (evlRNA) and the computed tomography (CT) attributes.</p><p>It includes 4 files:</p><p>1. gene expression matrix : gene expression matrix for all samples (normalized read counts) .</p><p>2. evlRNA Rad features: 6 image features, 17 evlRNA features and labels</p><p>3. differentially expressed genes: Differentially expressed genes in LUAD patients compared with Benign individuals.</p><p>4. raw data: raw data used to for figure and table.</p>
Lifestyle, Exercise, and Nutrition Study Early After Diagnosis
ClinicalTrials.gov study NCT03314688. IPD Sharing: Not stated. Countries: 1. Publications: 3.
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.