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United States State Cancer Profiles data extract
<p>State Cancer Profiles (https://statecancerprofiles.cancer.gov) hosts an interactive website for tracking United States cancer incidence and prevalence. The dataset hosted here is an automated scraping from all locales for all demographic variables and diseases. </p> <p>Two tables are available:</p> <ol> <li>Cancer incidence</li> <li>Cancer mortality</li> </ol> <p>The dataset is meant for data mining or for building additional data products based on the state cancer profiles data, but without having to scrape the data yourself. </p>
Structures extracted from the AlphaFold database for the set of sequences used in Rosenberg et al. Nat. Comm. 2022.
<p>Structures extracted from the AlphaFold database for the set of sequences used in Rosenberg, A.A., Marx, A. & Bronstein, A.M. Codon-specific Ramachandran plots show amino acid backbone conformation depends on identity of the translated codon. Nat Commum 13, 2815 (2022) <a href="https://doi.org/10.1038/s41467-022-30390-9">https://doi.org/10.1038/s41467-022-30390-9</a>.</p>
Fig. 7. a in Anti-cryptosporidial activity of Camellia sinensis (green tea extract) in experimentally infected immunocompromised mice
Fig. 7. a) A section of the small intestine in GV revealed normal villous architecture with a normal brush border (H&E stain, X200); b) Sections examined from the liver in this group showed preserved hepatic lobular architecture (H&E stain, X200).
Fig. 6. a in Anti-cryptosporidial activity of Camellia sinensis (green tea extract) in experimentally infected immunocompromised mice
Fig. 6. a) A section of the small intestine in GIV revealed marked villous broadening (red line) with decreased villous height to crypt length ratio. There was dense infiltration by mononuclear inflammatory cells within the villous core (green arrows), degeneration of the villous tip-regions (black arrows), and increased mucin production (H&E stain, X200). b) Sections from the small intestine revealed many adherents (red arrows) and separate (black arrows) Cryptosporium stages, probably oocyst (H&E stain, X1000). c)Sections examined from the liver in this group showed hepatocellular degeneration (black arrow) and focal mononuclear cellular infiltration (red arrows) (H&E stain, X200)
Fig. 5. a in Anti-cryptosporidial activity of Camellia sinensis (green tea extract) in experimentally infected immunocompromised mice
Fig. 5. a) A section of the small intestine in GIII revealed moderate villous broadening, infiltration by mononuclear inflammatory cells within the villous core (red arrow), focal degeneration of the villous tip regions (black arrow), and increased mucin production (H&E stain, X200). b) Sections examined from the liver in this group showed focal mononuclear cellular infiltration (red arrow) (H&E stain, X200).
Fig. 3. a in Anti-cryptosporidial activity of Camellia sinensis (green tea extract) in experimentally infected immunocompromised mice
Fig. 3. a) A section of the small intestine in GI revealed villous broadening (red line) with an expansion of the villous core by mononuclear inflammatory cells (black arrow) (H&E stain, X200); b) Sections examined from the liver in this group showed preserved hepatic lobular architecture and cloudy swelling of hepatocytes (H&E stain, X200).
Fig. 1. a in Anti-cryptosporidial activity of Camellia sinensis (green tea extract) in experimentally infected immunocompromised mice
Fig. 1. a) Cryptosporidium oocyst (stained red to deep purple with the modified Ziehl–Neelsen method); b) immunofluorescence staining of Cryptosporidium oocyst (ovoid or spherical brilliant apple/ green structure)
Fig. 2 in Anti-cryptosporidial activity of Camellia sinensis (green tea extract) in experimentally infected immunocompromised mice
Fig. 2. Agarose gel electrophoresis showing: Lane 1: 50 bp DNA molecular weight marker, Lane 2: Positive control, Lane 3: Negative control, Lane 4: Positive sample of nested PCR products targeting COWP gene of Cryptosporidium at 553 bp, Lane 5: 50 bp DNA molecular weight marker, and Lane 6: RFLP products of the sample after digestion with RsaI endonuclease (C. parvum genotype 2 digestion products at 410, 106, and 34 (too small to be detected) bp.
Fig. 4. a in Anti-cryptosporidial activity of Camellia sinensis (green tea extract) in experimentally infected immunocompromised mice
Fig. 4. a) A section of the small intestine in GII revealed returning of the normal villous pattern, normal mucosa, and goblet cells (H&E stain, X200). b) Sections examined from the liver in this group showed preserved hepatic lobular architecture (H&E stain, X200).
SICIL extractions of eNATL60 twin simulations
<p>This repository describes the SICIL extractions of the <a href="https://github.com/ocean-next/eNATL60">eNATL60</a> twin simulations : how to get it and how to reproduce it.</p>
Pharmacokinetic Relation Extraction Database (PRED)
<p>Annotated data to perform Relation Extraction and extract pharmacokinetic (PK) parameter estimates from scientific text. </p> <p>Training, development and test files are released in <a href="https://jsonlines.org/">JSONL format</a> and store the annoated data for training and evaluating end-to-end relation extraction models. </p> <p>Each line in the JSONL files corresponds to an annotated sentence with the following information: </p> <ul> <li><strong>text</strong>: Raw sentence</li> <li><strong>relations: </strong>List or relations each containing: <ul> <li><strong>head_span </strong>: Head entity of the relation as a dictionary containing start character, end character and entity type label</li> <li><strong>child_span: </strong>Child entity of the relation </li> <li><strong>label</strong>: relation type label (i.e. either C_VAL, D_VAL or RELATED)</li> </ul> </li> <li><strong>spans</strong>: List of entities mentioned in the sentence, specifying: (1) the character-level boundaries and (2) the entity type label of each annotation (i.e. either PK, VALUE, UNITS, RANGE or COMPARE). This field is not strictly required to train the model since all spans are defined within the relations.</li> <li><strong>sentence_hash</strong>: Unique sentence ID</li> <li><strong>metadata</strong>: Metadata with unique article, paragraph and sentence identifiers and the article section from which the sentence was extracted</li> </ul> <p> </p>
VAMDC extraction with identifier = ce5d74bc-0c77-4e77-8e81-cabb9705bbfb
<div>This is a dataset extracted from https://cdms.astro.uni-koeln.de/cdms/tap/ VAMDC node.</div><div>Query originating this dataset: query=select * where ( inchikey = 'tvqsuvfydvjwli-ahcxrolusa-n' ); </div><div> Data source version: 2019-11-27</div><div>Data format: XSAMS 12.07</div><div>Query uuid in VAMDC query store: ce5d74bc-0c77-4e77-8e81-cabb9705bbfb</div>
VAMDC extraction with identifier = 0a2fc0f8-9505-4535-87ef-060080260159
<div>This is a dataset extracted from http://basecoltap2015.vamdc.org/12_07/ VAMDC node.</div><div>Query originating this dataset: query=select * where ( target.moleculestoichiometricformula = 'cn-' ); </div><div> Data source version: 2024-05-22</div><div>Data format: XSAMS 12.07</div><div>Query uuid in VAMDC query store: 0a2fc0f8-9505-4535-87ef-060080260159</div>
VAMDC extraction with identifier = c9a810ce-4235-4ef7-bafd-a14271a49b81
<div>This is a dataset extracted from https://cdms.astro.uni-koeln.de/cdms/tap/ VAMDC node.</div><div>Query originating this dataset: query=SELECT * WHERE MoleculeStoichiometricFormula = 'CH+' </div><div> Data source version: 2019-11-27</div><div>Data format: XSAMS 12.07</div><div>Query uuid in VAMDC query store: c9a810ce-4235-4ef7-bafd-a14271a49b81</div>
VAMDC extraction with identifier = a819e879-760d-4ede-831a-38d359b5864c
<div>This is a dataset extracted from http://basecoltap2015.vamdc.org/12_07/ VAMDC node.</div><div>Query originating this dataset: query=select * where ( target.inchikey = 'tvqsuvfydvjwli-ahcxrolusa-n' ); </div><div> Data source version: 2024-05-22</div><div>Data format: XSAMS 12.07</div><div>Query uuid in VAMDC query store: a819e879-760d-4ede-831a-38d359b5864c</div>
VAMDC extraction with identifier = 9eba2785-4e1a-43ba-a0b5-2a071f417b2c
<div>This is a dataset extracted from http://basecoltap2015.vamdc.org/12_07/ VAMDC node.</div><div>Query originating this dataset: query=SELECT * WHERE TARGET.MoleculeStoichiometricFormula = 'CF+' </div><div> Data source version: 2024-05-22</div><div>Data format: XSAMS 12.07</div><div>Query uuid in VAMDC query store: 9eba2785-4e1a-43ba-a0b5-2a071f417b2c</div>
VAMDC extraction with identifier = 6f63824e-a037-47f0-8e07-8907d9fa78e8
<div>This is a dataset extracted from http://basecoltap2015.vamdc.org/12_07/ VAMDC node.</div><div>Query originating this dataset: query=SELECT * WHERE TARGET.MoleculeStoichiometricFormula = 'CH+' </div><div> Data source version: 2024-05-22</div><div>Data format: XSAMS 12.07</div><div>Query uuid in VAMDC query store: 6f63824e-a037-47f0-8e07-8907d9fa78e8</div>
VAMDC extraction with identifier = a622c36c-a623-4abc-92a2-5445f0127cb1
<div>This is a dataset extracted from https://cdms.astro.uni-koeln.de/cdms/tap/ VAMDC node.</div><div>Query originating this dataset: query=select * where ( moleculestoichiometricformula = 'cn-' ); </div><div> Data source version: 2019-11-27</div><div>Data format: XSAMS 12.07</div><div>Query uuid in VAMDC query store: a622c36c-a623-4abc-92a2-5445f0127cb1</div>
Extracts from Barrett, 2020, Dreaming
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Extracts from Niederhoffer et al., 2017, CLPsych
Open the record for dataset details and reuse information.
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.