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53 results for “bach”
BACH Dataset : Grand Challenge on Breast Cancer Histology images
<p><strong>i3S Annotated Datasets on Digital Pathology</strong></p> <p> </p> <p><strong>WELCOME</strong></p> <p>In an effort to contribute and push forward the field of Digital Pathology, <a href="https://www.ipatimup.pt/">Ipatimup</a> and <a href="http://www.ineb.up.pt/">INEB</a>, two major research institutions in Portugal, have joined forces in the construction of histology datasets to support grand Challenges on automatic classification of tissue malignancy. The researchers/pathologists responsible for the datasets are:</p> <p><a href="mailto:apolonia@ipatimup.pt">António Polónia</a> (MD), Ipatimup/i3S</p> <p><a href="mailto:celoy@ipatimup.pt">Catarina Eloy</a> (MD, PhD), Ipatimup/i3S</p> <p><a href="mailto:pauloaguiar@ineb.up.pt">Paulo Aguiar</a> (PhD), INEB/i3S</p> <p> </p> <p>This specific page refers to the <a href="https://iciar2018-challenge.grand-challenge.org/home/">Grand Challenge on Breast Cancer Histology images</a>, or BACH Challenge</p> <p> </p> <p><strong>THE BACH CHALLENGE DATASET</strong></p> <p><a href="https://iciar2018-challenge.grand-challenge.org/home/">ICIAR 2018 - Grand Challenge on Breast Cancer Histology images</a> [Challenge organized by Teresa Araújo, Guilherme Aresta, António Polónia, Catarina Eloy and Paulo Aguiar]</p> <p>For detailed information visit: <a href="https://iciar2018-challenge.grand-challenge.org/home/">https://iciar2018-challenge.grand-challenge.org/home/</a></p> <p> </p> <p>THIS DATASET IS PUBLICALLY AVAILABLE UNDER A CREATIVE COMMONS CC BY-NC-ND LICENSE (<a href="https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode">ATTRIBUTION-NONCOMMERCIAL-NODERIVS</a>)<br> ESSENCIALLY, YOU ARE GRANTED ACCESS TO THE DATASET FOR USE IN YOUR RESEARCH AS LONG AS YOU CREDIT OUR WORK/PUBLICATIONS(*), BUT YOU CANNOT CHANGE THEM IN ANY WAY OR USE THEM COMMERCIALLY</p> <ul> <li>(*) Aresta, Guilherme, et al. "BACH: Grand challenge on breast cancer histology images." Medical image analysis (2019).</li> <li>(*) Araújo, Teresa, et al. "Classification of breast cancer histology images using convolutional neural networks." PloS one 12.6 (2017): e0177544.</li> <li>(*) Fondón, Irene, et al. "Automatic classification of tissue malignancy for breast carcinoma diagnosis." Computers in biology and medicine 96 (2018): 41-51.</li> </ul> <p> </p> <p> </p> <p> </p> <p> </p>
FIGURE. Fruiting heads and peduncles of C. spongifolia. A. Site WP260; two peduncles have lost heads (arrows 1 and 2), the upper part (male zone) of one spadix lies on ground (arrow 3), and six attached heads all touch ground. B–E. Site WP251; a single, detached immature head with bite marks in upper and lower ends, and torn surface at junction with peduncle (at left in D–E). Scale bars: 10 cm with 1 cm units (main image); 8 cm with 2 cm units (lower right); B–C enlarged, without scale. (Bach Ma NP, 2018). Photos: PJM. in Colocasia spongifolia sp. nov. (Araceae) in southern China and central Vietnam
FIGURE. Fruiting heads and peduncles of C. spongifolia. A. Site WP260; two peduncles have lost heads (arrows 1 and 2), the upper part (male zone) of one spadix lies on ground (arrow 3), and six attached heads all touch ground. B–E. Site WP251; a single, detached immature head with bite marks in upper and lower ends, and torn surface at junction with peduncle (at left in D–E). Scale bars: 10 cm with 1 cm units (main image); 8 cm with 2 cm units (lower right); B–C enlarged, without scale. (Bach Ma NP, 2018). Photos: PJM.
FIGURE. Floral habit and structure of C. spongifolia. A. Type specimen in situ with open, spathe limb (apex is reflexed out of view), and green spathe tube (ca. 6 cm long). B. Adjacent plant with inflorescences and prophylls. C. Spadix showing from top: sterile appendix, staminate (male) zone, sterile interstice, and green pistillate (female) zone with tapered, conical form. D. Detail of female zone showing a few basal staminodes. E–G. Berries of the preserved type specimen. G. Dissected berry with orthotropous ovules (some outlined) attached by funicles to parietal placentae (arrows). H. Surface of male zone showing closely-packed synandria. I. Synandria separated to show fused anther sacs beneath apical pores (example in center has 8 pores, 8 anthers) J. Mature fruiting head, with single berry removed to show seed packing and 67 seeds extracted (scale bar units: 1 mm) (Bach Ma NP; type 2020; fruit and seeds 2018). Photos: NVD and PJM. in Colocasia spongifolia sp. nov. (Araceae) in southern China and central Vietnam
FIGURE. Floral habit and structure of C. spongifolia. A. Type specimen in situ with open, spathe limb (apex is reflexed out of view), and green spathe tube (ca. 6 cm long). B. Adjacent plant with inflorescences and prophylls. C. Spadix showing from top: sterile appendix, staminate (male) zone, sterile interstice, and green pistillate (female) zone with tapered, conical form. D. Detail of female zone showing a few basal staminodes. E–G. Berries of the preserved type specimen. G. Dissected berry with orthotropous ovules (some outlined) attached by funicles to parietal placentae (arrows). H. Surface of male zone showing closely-packed synandria. I. Synandria separated to show fused anther sacs beneath apical pores (example in center has 8 pores, 8 anthers) J. Mature fruiting head, with single berry removed to show seed packing and 67 seeds extracted (scale bar units: 1 mm) (Bach Ma NP; type 2020; fruit and seeds 2018). Photos: NVD and PJM.
FIGURE. Stem, roots, and buds of C. spongifolia. A. Cross section of stem in B, showing clear, gummy exudate. B. Mature stem with decumbent part at left, erect part at right, roots and rootlets, brown leaf scars, and single adaxial buds (arrows). C. Young stem, with single, adaxial bud revealed. Scale bars = 2 cm (Bach Ma NP, 2018, 2021). Photos: NVD and PJM. in Colocasia spongifolia sp. nov. (Araceae) in southern China and central Vietnam
FIGURE. Stem, roots, and buds of C. spongifolia. A. Cross section of stem in B, showing clear, gummy exudate. B. Mature stem with decumbent part at left, erect part at right, roots and rootlets, brown leaf scars, and single adaxial buds (arrows). C. Young stem, with single, adaxial bud revealed. Scale bars = 2 cm (Bach Ma NP, 2018, 2021). Photos: NVD and PJM.
FIGURE. Blades of C. spongifolia. A. Sub-marginal and marginal collective veins, with laminal tissue (2–4 mm) between. B. Marginal collective veins fused below shallow sinus. C. Underside with spongy appearance produced by "false pores"; and thick, rubbery texture indicated by axial wrinkles formed in crease. D. Underside showing primary vein and pinnate lateral veins surrounded by spongy tissue. E. Sub-stomatal cavities revealed by transmitted light (scale unit 0.25 mm), F. Sub-stomatal cavities revealed by removing lower epidermis (A–D: Mengla County, 2018. E–F: Bach Ma NP seedling, ex situ). Photos: PJM. in Colocasia spongifolia sp. nov. (Araceae) in southern China and central Vietnam
FIGURE. Blades of C. spongifolia. A. Sub-marginal and marginal collective veins, with laminal tissue (2–4 mm) between. B. Marginal collective veins fused below shallow sinus. C. Underside with spongy appearance produced by "false pores"; and thick, rubbery texture indicated by axial wrinkles formed in crease. D. Underside showing primary vein and pinnate lateral veins surrounded by spongy tissue. E. Sub-stomatal cavities revealed by transmitted light (scale unit 0.25 mm), F. Sub-stomatal cavities revealed by removing lower epidermis (A–D: Mengla County, 2018. E–F: Bach Ma NP seedling, ex situ). Photos: PJM.
Mynydd Bach Cairn
Mynydd Bach Cairn [https://coflein.gov.uk/en/site/302343](https://coflein.gov.uk/en/site/302343) *AHRC (UK) AH/L007916/1* Source: Objaverse 1.0 / Sketchfab
Trajectories and metadata for Bach et al.: 'Holistic re-evaluation of Southern Ocean Iron Fertilization for atmospheric CO2 removal'
<p>Trajectory and metadata files from a Southern Ocean surface particle release experiment using Connectivity Modeling System (Paris et al. 2013, <a href="https://github.com/beatrixparis/connectivity-modeling-system">https://github.com/beatrixparis/connectivity-modeling-system</a>) run offline in the MOM01 model (Stewart et al., 2017; Spence et al., 2017; Morrison et al., 2020), a global 0.1° ocean sea-ice model, based on version 5 of the Modular Ocean Model (MOM) code (mom-ocean.github.io) (Griffies, 2012).</p> <p> Here particle trajectories are are split into 28 netcdf files (numbered traj_file_01.nc through traj_file_28.nc), and uploaded altogether as a single .tar.gz compressed file. Metadata files are also uploaded containing information on the CMS setup and release locations.</p> <p>Netcdf files contain particle trajectory positions, along with temperature, salinity, status in or out of the mixed layer, release date, and particle exit status (see <a href="https://github.com/beatrixparis/connectivity-modeling-system/blob/master/User-Guide-v2.pdf">CMS user guide</a> for details on trajectory files). Other CMS setup files included in each release directory are nest_1.nml, runconf.list, ibm.list, and releaseFile_matchtransport. These input files contain information needed to reproduce the experiment using the MOM01 model output, and are explained in detail in the <a href="https://github.com/beatrixparis/connectivity-modeling-system/blob/master/User-Guide-v2.pdf">CMS user guide</a>.</p> <p> </p> <p>Citation of associated paper: Bach, L., V. Tamsitt, K. Baldry, J. McGee, E. Laurenceau-Cornec, R. Strzepek, Y. Xie, P. W. Boyd, 2021. Holistic re-evaluation of Southern Ocean Iron Fertilization for atmospheric CO<sub>2</sub> removal, <em>submitted </em></p> <p> </p> <p>References:</p> <p>Griffies, S. M. (2012). Elements of the modular ocean model (MOM). <em>GFDL Ocean Group Tech. Rep</em>, 7(620), 47.</p> <p> Morrison, A. K., Hogg, A. M., England, M. H., & Spence, P. (2020). Warm Circumpolar Deep Water transport towards Antarctic driven by local dense water export in canyons. <em>Science Advances</em>, 6(18), eaav2516.</p> <p> Paris, C. B., Helgers, J., van Sebille, E., & Srinivasan, A. (2013). Connectivity Modeling System: A probabilistic modeling tool for the multi-scale tracking of biotic and abiotic variability in the ocean. <em>Environmental Modelling and Software</em>, 42, 47-54.</p> <p>Spence, P., Holmes, R. M., Hogg, A. M., Gries, S. M., Stewart, K. D., & England, M. H. (2017). Localized rapid warming of West Antarctic subsurface waters by remote winds. <em>Nature Climate Change</em>, 7(8), 595.</p> <p>Stewart, K., Hogg, A. M., Gries, S., Heerdegen, A., Ward, M., Spence, P., & England, M. H. (2017). Vertical resolution of baroclinic modes in global ocean models. <em>Ocean Modelling</em>, 113, 50-65.</p>
Bach Music in Preterm Infants: No "Mozart Effect" on Resting Energy Expenditure
ClinicalTrials.gov study NCT01595191. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Better After CHoosing. Randomly Allocated or Patient Preference Based Treatment With Filgotinib or TNFi in RA (BACH)
ClinicalTrials.gov study NCT04985435. IPD Sharing: NO. Countries: 1. Publications: 21.
OnaBotulinumtoxin-A in Chronic Migraine Patients with Short or Long Disease History (the BACH Study)
ClinicalTrials.gov study NCT06537700. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Figure 8 from: Steinbeck C, Koepler O, Bach F, Herres-Pawlis S, Jung N, Liermann JC, Neumann S, Razum M, Baldauf C, Biedermann F, Bocklitz TW, Boehm F, Broda F, Czodrowski P, Engel T, Hicks MG, Kast SM, Kettner C, Koch W, Lanza G, Link A, Mata RA, Nagel WE, Porzel A, Schlörer N, Schulze T, Weinig H-G, Wenzel W, Wessjohann LA, Wulle S (2020) NFDI4Chem - Towards a National Research Data Infrastructure for Chemistry in Germany. Research Ideas and Outcomes 6: e55852. https://doi.org/10.3897/rio.6.e55852
Figure 8 Components of TA2, Smart Lab, and connection to TA3: Seamless data transfer from devices via the ELN to repositories. Grey panels: modular software plugins, orange panels: modular software plugins for ELN and repositories, blue panels: software developed for the ELN. OC, IC, PC, PolyCC and AC represent the modules of the subdisciplines to be developed (see list of abbreviations in the last section of the Grant Proposal and the table to it).
Figure 7 from: Steinbeck C, Koepler O, Bach F, Herres-Pawlis S, Jung N, Liermann JC, Neumann S, Razum M, Baldauf C, Biedermann F, Bocklitz TW, Boehm F, Broda F, Czodrowski P, Engel T, Hicks MG, Kast SM, Kettner C, Koch W, Lanza G, Link A, Mata RA, Nagel WE, Porzel A, Schlörer N, Schulze T, Weinig H-G, Wenzel W, Wessjohann LA, Wulle S (2020) NFDI4Chem - Towards a National Research Data Infrastructure for Chemistry in Germany. Research Ideas and Outcomes 6: e55852. https://doi.org/10.3897/rio.6.e55852
Figure 7 Existing services forming the nucleus of the envisioned federation of repositories as part of the NFDI4Chem infrastructure.
Figure 11 from: Steinbeck C, Koepler O, Bach F, Herres-Pawlis S, Jung N, Liermann JC, Neumann S, Razum M, Baldauf C, Biedermann F, Bocklitz TW, Boehm F, Broda F, Czodrowski P, Engel T, Hicks MG, Kast SM, Kettner C, Koch W, Lanza G, Link A, Mata RA, Nagel WE, Porzel A, Schlörer N, Schulze T, Weinig H-G, Wenzel W, Wessjohann LA, Wulle S (2020) NFDI4Chem - Towards a National Research Data Infrastructure for Chemistry in Germany. Research Ideas and Outcomes 6: e55852. https://doi.org/10.3897/rio.6.e55852
Figure 11 TA6 will manage the synergies and interfaces to other NFDI consortia and the NFDI as a whole. It will ensure that cross-cutting topics such as NFDI-wide services are properly addressed and their results incorporated into NFDI4Chem.
Figure 10 from: Steinbeck C, Koepler O, Bach F, Herres-Pawlis S, Jung N, Liermann JC, Neumann S, Razum M, Baldauf C, Biedermann F, Bocklitz TW, Boehm F, Broda F, Czodrowski P, Engel T, Hicks MG, Kast SM, Kettner C, Koch W, Lanza G, Link A, Mata RA, Nagel WE, Porzel A, Schlörer N, Schulze T, Weinig H-G, Wenzel W, Wessjohann LA, Wulle S (2020) NFDI4Chem - Towards a National Research Data Infrastructure for Chemistry in Germany. Research Ideas and Outcomes 6: e55852. https://doi.org/10.3897/rio.6.e55852
Figure 10 The cultural change in chemical RDM is supported through training and community involvement in TA5 as well as by the NFDI4Chem infrastructure.
Chord voicings for 370 chorales by J. S. Bach as generated by the 'voicer' algorithm
<p>This is a dataset of 370 chorales by J S. Bach as generated by the 'voicer' algorithm for automatic chord voicing. This dataset is intended to accompany the paper 'A Computational Model for the Analysis and Generation of Chord Voicings'.</p> <p>Note: there are 370 chorales, but the numbering goes from 1 to 371, with one chorale omitted, matching the original dataset from http://kern.humdrum.org.</p>
Figure 2 from: Ngoc NV, Tagane S, Binh HT, Toyama H, Okabe N, Nguyen Duy C, Yahara T (2016) Popowia bachmaensis (Annonaceae), a new species from Bach Ma National Park, Central Vietnam. PhytoKeys 65: 125-131. https://doi.org/10.3897/phytokeys.65.8792
Figure 2 - Illustration of Popowia bachmaensis, sp. nov. a Leafy twig b Flower c Pedicel and sepals d Fruit e Inner petal f Carpel and g Stamen. Materials all from Yahara et al. V2557 (FU). Drawn by Ngoc & Binh.
Figure 1 from: Ngoc NV, Tagane S, Binh HT, Toyama H, Okabe N, Nguyen Duy C, Yahara T (2016) Popowia bachmaensis (Annonaceae), a new species from Bach Ma National Park, Central Vietnam. PhytoKeys 65: 125-131. https://doi.org/10.3897/phytokeys.65.8792
Figure 1 - Popowia bachmaensis, sp. nov. a Holotype (KYO) b habit c flower d pedicel and sepals e sepals f section of flower g inner petal h fruit on branch i dried fruit j seed k carpel l, m stamens. Materials from Yahara et al. V2557 (KYO). Scale bars: d–g, i–m =1 mm.
Figure 2 from: Soejima A, Tagane S, Van NN, Duy CN, Huong NTT, Yahara T (2016) Callicarpa bachmaensis Soejima & Tagane (Lamiaceae), a new species from Bach Ma National Park in Thua Thien Hue Province, Central Vietnam. PhytoKeys 62: 33-39. https://doi.org/10.3897/phytokeys.62.7974
Figure 2 - Callicarpa bachmaensis Soejima & Tagane, sp. nov. A Flowering branch B Stellate and dendroid hairs on calyx (left three) and lower surface of leaves (right) C Abaxial surface of lamina D Flower with the corolla dissected to show filaments and style E Fruit. Materials: Tagane et al. V2677.
Figure 1 from: Soejima A, Tagane S, Van NN, Duy CN, Huong NTT, Yahara T (2016) Callicarpa bachmaensis Soejima & Tagane (Lamiaceae), a new species from Bach Ma National Park in Thua Thien Hue Province, Central Vietnam. PhytoKeys 62: 33-39. https://doi.org/10.3897/phytokeys.62.7974
Figure 1 - Callicarpa bachmaensis Soejima & Tagane, sp. nov. A Branch apex B Flowering branch C Abaxial surface of lamina D Inflorescences E Twigs and base of petiole, F Infructescence [Binh & Cuong VN1985 (HN). Scale bar E = 5 mm].
Figure 3 from: Soejima A, Tagane S, Van NN, Duy CN, Huong NTT, Yahara T (2016) Callicarpa bachmaensis Soejima & Tagane (Lamiaceae), a new species from Bach Ma National Park in Thua Thien Hue Province, Central Vietnam. PhytoKeys 62: 33-39. https://doi.org/10.3897/phytokeys.62.7974
Figure 3 - Distribution of Callicarpa bachmaensis Soejima & Tagane. Black triangle: type locality in Bach Ma National Park; white triangle: other collection sites in Vietnam.
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.