cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.14288/1.0381014
title: 2006 Census of Canada - Selected Characteristics for Housing - Vancouver, Toronto, Montreal CMAs at the Census Tract (CT) Level [custom tabulation] 002

description: &lt;p&gt;This dataset includes three tables which were custom ordered from Statistics Canada. There is a table each for Vancouver CMA, Montreal CMA, and Toronto CMA, and the tables contain variables regarding dwelling characteristics, tenure, and shelter cost. &lt;p&gt; &lt;p&gt;The dataset is in Beyond 20/20 (.ivt) format. The Beyond 20/20 browser is required in order to open it. This software can be freely downloaded from the Statistics Canada website: https://www.statcan.gc.ca/eng/public/beyond20-20 (Windows only). &lt;br /&gt; For information on how to use Beyond 20/20, please see: &lt;br /&gt; http://odesi2.scholarsportal.info/documentation/Beyond2020/beyond20-quickstart.pdf &lt;br /&gt; https://wiki.ubc.ca/Library:Beyond_20/20_Guide &lt;/p&gt; &lt;p&gt;&lt;b&gt;Custom order from Statistics Canada includes the following dimensions and variables:&lt;/b&gt; &lt;/p&gt; &lt;p&gt;Geography: Montreal CMA, Vancouver CMA, Toronto CMA to the census tract level &lt;/p&gt; &lt;p&gt;Total Shelter Cost: Under $500 to over $3000 in $500 intervals&lt;/p&gt; &lt;p&gt;Shelter Cost to-Income Ratio: Spending less than 15%, 15-30%, 30-50%, 50% or more&lt;/p&gt; &lt;p&gt;Tenure: Owner (including presence of mortgage), renter&lt;/p&gt; &lt;p&gt;Condominium Status: Condominium, not a condominium&lt;/p&gt; &lt;p&gt;Household Size: 1 person, 2 persons, 3 or more people &lt;/p&gt; &lt;p&gt;Number of Bedrooms: No bedroom or 1 bedroom, 2 or more bedrooms&lt;/p&gt; &lt;p&gt;Structural Type: &lt;/p&gt; &lt;p&gt;-Single detached house&lt;br /&gt; -Apartment with 5 or more stories&lt;br /&gt; -Semi-detached house, row house or other single detached house&lt;br /&gt; -Apartment or flat in a duplex&lt;br /&gt; -Apartment, building with fewer than 5 stories&lt;/p&gt; Household Income: Median income and average income only &lt;p&gt; Original file names:&lt;br /&gt; EO3091_Table2_Montreal.ivt&lt;br /&gt; EO3091_Table2_Toronto.ivt&lt;br /&gt; EO3091_Table2_Vancouver.ivt&lt;br&gt;&lt;/p&gt;
DOI: 10.14288/1.0363910
title: Sharing and reusing gene expression profiling data in neuroscience

description: As public availability of gene expression profiling data increases, it is natural to ask how these data can be used by neuroscientists. Here we review the public availability of high-throughput expression data in neuroscience and how it has been reused, and tools that have been developed to facilitate reuse. There is increasing interest in making expression data reuse a routine part of the neuroscience tool-kit, but there are a number of challenges. Data must become more readily available in public databases; efforts to encourage investigators to make data available are important, as is education on the benefits of public data release. Once released, data must be better-annotated. Techniques and tools for data reuse are also in need of improvement. Integration of expression profiling data with neuroscience-specific resources such as anatomical atlases will further increase the value of expression data.
DOI: 10.14288/1.0373459
title: Replication data for: The natural capital of Grappler Peninsula: a comparative study of old and secondary growth coastal temperate rainforest

description: The one-hectare second growth SI/MAB plot was recensused August 1-20, 2007, and a second plot of old growth cedar forest was established and censused following Environment Canada's Ecological Monitoring and Assessment Network or EMAN protocol. Data is presented here. For a comparison of canopy cover in the SI/MAB plot between 2001 and 2007, see the 2007 student report. &lt;p/&gt; Both plots are located on the north side of Grappler Inlet near Bamfield, British Columbia on property owned and administered by the Bamfield Marine Sciences Centre. The centre of the SI/MAB plot has GPS coordinates 48°50’19.00”N, 125°08’02.00”W (48.83861111, -125.13388889), and the centre of the EMAN plot has GPS coordinates 48°50’05.00”N, 125°07’45.00”W (48.83472222, -125.12916667). &lt;p/&gt; Both plots are divided into 25 quadrats (20m x 20m). Live and dead standing trees were censused for species, DBH (diameter at breast height) and status (physical condition). Only trees with a DBH ≥ 8 cm were censused in the EMAN plot to avoid the detrimental effects of nailing tags into the trunks of small trees. This same principle was applied to new trees in the SI/MAB plot but none were found. &lt;p/&gt; Data was collected by students in the Coastal Biodiversity and Conservation course taught by Dr. Tom Herman and Dr. Barb Beasley July 23-Aug 31, 2007 with Teaching Assistant Ben Starkhouse.
DOI: 10.14288/1.0374296
title: Replication data for: 2007 intertidal biodiversity survey of Wizard Islet conducted by the Coastal Biodiversity and Conservation Class

description: In 1997 the Bamfield Marine Sciences Centre established a long-term monitoring project to collect baseline data on the distribution and abundance of macroorganisms at two intertidal sites on Wizard Islet in Barkley Sound. Both sites were resampled in 2001, and the exposed site was resampled in 2002 and 2003. In 2007, both sites were sampled again, and data is presented here for algal cover (%), sessile invertebrates cover (%) and invertebrates density. &lt;p/&gt; Wizard Islet (48°51’29.5”N, 125°09’31”W) is located within the Deer Group Islands in Barkley Sound and has an area of 1.73 hectares at low tide. The sheltered site (with less wave exposure) is located on a 50m stretch of fixed rocky shore on the northeast side and is characterized by Fucus and Phyllospadix (seagrass). The exposed site is located on a 50m stretch of fixed rocky shore on the southwest side and is characterized by Egregia (feather-boa kelp), goose-necked barnacles and Alaria (brown alga). &lt;p/&gt; Vertical transects were randomly selected; 17 on the sheltered site (tag numbers 5, 13, 20, 21, 26, 28, 31, 32, 33, 35, 36, 38, 42, 44, 45, 46, 48) and 15 on the exposed site (tag numbers 1, 3, 6, 10, 12, 13, 17, 23, 25, 27, 29, 33, 41, 42, 46). &lt;p/&gt; Sampling was done at tidal heights of 0.5, 1, 1.5, 2, 2.5, 3 and 3.5m. Quadrats of 25x25cm were used to estimate algal cover, sessile invertebrate cover, and invertebrate density. Quadrats of 50x50cm were used to sample invertebrates in the class Polyplacophora and phylum Echinodermata. &lt;p/&gt; Data was collected by students in the Coastal Biodiversity and Conservation course taught by Dr. Tom Herman and Dr. Barb Beasley with Teaching Assistant Ben Starkhouse July 23-Aug 31, 2007.
DOI: 10.14288/1.0363897
title: Application and evaluation of automated semantic annotation of gene expression experiments

description: &lt;p&gt;MOTIVATION:&lt;br&gt; Many microarray datasets are available online with formalized standards describing the probe sequences and expression values. Unfortunately, the description, conditions and parameters of the experiments are less commonly formalized and often occur as natural language text. This hinders searching, high-throughput analysis, organization and integration of the datasets.&lt;p&gt; &lt;p&gt;RESULTS:&lt;br&gt; We use the lexical resources and software tools from the Unified Medical Language System (UMLS) to extract concepts from text. We then link the UMLS concepts to classes in open biomedical ontologies. The result is accessible and clear semantic annotations of gene expression experiments. We applied the method to 595 expression experiments from Gemma, a resource for re-use and meta-analysis of gene expression profiling data. We evaluated and corrected all stages of the annotation process. The majority of missed annotations were due to a lack of cross-references. The most error-prone stage was the extraction of concepts from phrases. Final review of the annotations in context of the experiments revealed 89% precision. A naive system, lacking the phrase to concept corrections is 68% precise. We have integrated this annotation pipeline into Gemma.&lt;p&gt; &lt;p&gt;AVAILABILITY:&lt;br&gt; The source code, documentation and Supplementary Materials are available at http://www.chibi.ubc.ca/GEOMMTX. The results of the manual evaluations are provided as Supplementary Material. Both manual and predicted annotations can be viewed and searched via the Gemma website at http://www.chibi.ubc.ca/Gemma. The complete set of predicted annotations is available as a machine readable resource description framework graph.&lt;p&gt;
DOI: 10.14288/1.0363902
title: Automated recognition of brain region mentions in neuroscience literature

description: The ability to computationally extract mentions of neuroanatomical regions from the literature would assist linking to other entities within and outside of an article. Examples include extracting reports of connectivity or region-specific gene expression. To facilitate text mining of neuroscience literature we have created a corpus of manually annotated brain region mentions. The corpus contains 1,377 abstracts with 18,242 brain region annotations. Interannotator agreement was evaluated for a subset of the documents, and was 90.7% and 96.7% for strict and lenient matching respectively. We observed a large vocabulary of over 6,000 unique brain region terms and 17,000 words. For automatic extraction of brain region mentions we evaluated simple dictionary methods and complex natural language processing techniques. The dictionary methods based on neuroanatomical lexicons recalled 36% of the mentions with 57% precision. The best performance was achieved using a conditional random field (CRF) with a rich feature set. Features were based on morphological, lexical, syntactic and contextual information. The CRF recalled 76% of mentions at 81% precision, by counting partial matches recall and precision increase to 86% and 92% respectively. We suspect a large amount of error is due to coordinating conjunctions, previously unseen words and brain regions of less commonly studied organisms. We found context windows, lemmatization and abbreviation expansion to be the most informative techniques. The corpus is freely available at http://www.chibi.ubc.ca/WhiteText/.
DOI: 10.14288/1.0363906
title: A methodology for the analysis of differential coexpression across the human lifespan

description: &lt;p&gt;BACKGROUND: Differential coexpression is a change in coexpression between genes that may reflect 'rewiring' of transcriptional networks. It has previously been hypothesized that such changes might be occurring over time in the lifespan of an organism. While both coexpression and differential expression of genes have been previously studied in life stage change or aging, differential coexpression has not. Generalizing differential coexpression analysis to many time points presents a methodological challenge. Here we introduce a method for analyzing changes in coexpression across multiple ordered groups (e.g., over time) and extensively test its validity and usefulness.&lt;p&gt; &lt;p&gt;RESULTS: Our method is based on the use of the Haar basis set to efficiently represent changes in coexpression at multiple time scales, and thus represents a principled and generalizable extension of the idea of differential coexpression to life stage data. We used published microarray studies categorized by age to test the methodology. We validated the methodology by testing our ability to reconstruct Gene Ontology (GO) categories using our measure of differential coexpression and compared this result to using coexpression alone. Our method allows significant improvement in characterizing these groups of genes. Further, we examine the statistical properties of our measure of differential coexpression and establish that the results are significant both statistically and by an improvement in semantic similarity. In addition, we found that our method finds more significant changes in gene relationships compared to several other methods of expressing temporal relationships between genes, such as coexpression over time.&lt;p&gt; &lt;p&gt;CONCLUSION: Differential coexpression over age generates significant and biologically relevant information about the genes producing it. Our Haar basis methodology for determining age-related differential coexpression performs better than other tested methods. The Haar basis set also lends itself to ready interpretation in terms of both evolutionary and physiological mechanisms of aging and can be seen as a natural generalization of two-category differential coexpression.&lt;p&gt; &lt;p&gt;CONTACT: paul@bioinformatics.ubc.ca.&lt;p&gt;
DOI: 10.14288/1.0374291
title: Replication data for: Long term monitoring of the rocky intertidal on Wizard Island in Barkley Sound

description: In 1997 the Bamfield Marine Sciences Centre established a long-term monitoring project to collect baseline data on the distribution and abundance of macroorganisms at two intertidal sites on Wizard Islet in Barkley Sound. Both sites were resampled in 2001 and 2007, and the exposed site was resampled in 2002 and 2003. In 2009, both sites were sampled again, and a Microsoft Access database was created with comparable data from previous years (1997-2007). Data is presented here for algal cover (%), sessile invertebrate cover (%), invertebrate density, and sea star density for 2009 as well as the complete Microsoft Access database. &lt;p/&gt; Wizard Islet (48°51’29.5”N, 125°09’31”W) is located within the Deer Group Islands in Barkley Sound and has an area of 1.73 hectares at low tide. The sheltered site (with less wave exposure) is located on a 50m stretch of fixed rocky shore on the northeast side and is characterized by Fucus and Phyllospadix (seagrass). The exposed site is located on a 50m stretch of fixed rocky shore on the southwest side and is characterized by Egregia (feather-boa kelp), goose-necked barnacles and Alaria (brown alga). &lt;p/&gt; Fifteen transects were randomly selected at the sheltered site (tag numbers 7, 10, 11, 12, 15, 18, 21, 26, 34, 36, 38, 40, 42, 44, 48) and the exposed site (tag numbers 1, 3, 5, 11, 15, 17, 20, 23, 25, 32, 37, 40, 44, 46, 48). &lt;p/&gt; Sampling was done at tidal heights of 1, 1.5, 2, 2.5, 3 and 3.5m. In 2009 tidal height of 0.5m was not sampled due to time constraints and limited low tide series. &lt;p/&gt; Quadrats of 25x25cm were used for percent cover of bare rock, algae, colonial and encrusting species. Quadrats of 25x25cm were also used for counts of invertebrates with the exception of seastars which were counted in 50x50cm quadrats. To maintain consistency, all quadrats were positioned to the left and above each point on the transect (when facing away from the water). &lt;p/&gt; Data collected by students in the Coastal Biodiversity and Conservation course taught by Dr. Brian Starzomski and Dr. Tom Okey with Teaching Assistant Christine Gruman July 27 – September 4, 2009.
DOI: 10.14288/1.0319858
title: LibQUAL+ 2009 Subset

description: The LibQUAL+ survey is a web-based survey developed by the Association of Research Libraries. It measures the value of library service quality. The complete survey includes demographic questions, 22 core questions, and general satisfaction/usage questions. LibQUAL+ 2009 Subset: The current dataset is a subset of the LibQUAL+ 2009 survey. It includes six (6) variables representing two (2) groups of variables. These are: Demographic variables Variables: 1. Academic discipline 2. Library used most often 3. User group LibQUAL+ general satisfaction and library use questions Variables: 4. Satisfaction - learning, research, teaching support 5. Satisfaction - overall quality of service 6. In-person visits to the library
DOI: 10.15468/dl.tkkk8c
title: Occurrence Download

description: A dataset containing 4349335 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Falcaria bilineata (Packard, 1864), Rheumaptera hastata (Linnaeus, 1758), Acronicta impressa Walker, 1856, Anomoea laticlavia (Forster, 1771), Pediacus depressus (Herbst, 1797), Dicerca hornii Crotch, 1873, Dicerca caudata LeConte, 1860, Dicerca pugionata (Germar, 1824), Altica ambiens alni Harris, 1869, Dicerca lugubris LeConte, 1860, Rhynchaenus griseus Sleeper, 1955, Acmaeodera cuneata Fall, 1899, Hebata zanclus (Hamilton, 1987), Edwardsiana pseudocommissuralis Christian, 1953, Empoa bella (Hamilton, 1983), Aphrophora quadrinotata Say, 1830, Erythridula rugosae (Ross & DeLong, 1953), Spinus pinus (A.Wilson, 1810), Psyche crassiorella Bruand, 1850, Nola confusalis (Herrich-Schäffer, 1847), Orgyia recens (Hübner, 1819), Phyllonorycter strigulatella (Zeller, 1846), Selenia dentaria (Fabricius, 1775), Eulithis xylina (Hulst, 1896), Lycia rachelae (Hulst, 1896), Lithophane pexata Grote, 1874, Eurukuttarus rotunda (Hampson, 1893), Gretchena semialba McDunnough, 1925, Olethreutes submissanum (McDunnough, 1922), Acleris comariana (Lienig & Zeller, 1846), Linnavuoriana intercedens (Linnavuori, 1950), Kybos strobli (Wagner, 1949), Eupteryx artemisiae (Kirschbaum, 1868), Agrilus champlaini Frost, 1912, Trichiura crataegi (Linnaeus, 1758), Chrysomela mainensis J.Bechyné, 1954, Alcis repandata (Linnaeus, 1758), Altica ambiens J.L.LeConte, 1859, Angerona prunaria (Linnaeus, 1758), Prociphilus tessellatus (Fitch, 1851), Dysstroma truncata (Hufnagel, 1767), Psyche casta (Pallas, 1767), Anorthoa munda (Denis & Schiffermüller), 1775, Canephora hirsuta (Poda, 1761), Chrysocharis purpurea Bukovskii, 1938, Achrysocharoides splendens (Delucchi, 1954), Chrysocharis nitetis (Walker, 1839), Sympiesis sericeicornis (Nees, 1834), Sympiesis gordius (Walker, 1839), Pnigalio pectinicornis (Linnaeus, 1758))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 4349335 records from 1076 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012951-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10041839
title: ADS-C Air Traffic Data Collected by the OpenSky Network

description: ADS-C data collected by the OpenSky Network since 7th July 2023. 

Data underlying (Version 1.1)

A First Look at Exploiting the Automatic Dependent Surveillance-Contract Protocol for Open Aviation Research

https://journals.open.tudelft.nl/joas/article/view/7229
DOI: 10.15468/dl.bfn6a5
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Osmeriformes",
 "Geometry POLYGON ((7.2551 0.4095, 6.9596 0.8334, 6.5492 0.9061, 6.0738 0.5779, 5.9713 0.201, 6.1078 -0.2929, 6.5348 -0.5139, 7.0629 -0.1853, 7.2551 0.4095))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is Human Observation"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008198-250525065834625/datasets/export for details.
DOI: 10.5517/ccdc.csd.cc2kksyw
title: CCDC 2370599: Experimental Crystal Structure Determination

description: Related Article: Ahmed S. Faihan, Tarek A. Yousef, Ibtehaj F. Alshdoukhi, Muhammad Ashfaq, Ahmed S. Al-Janabi, Reza Behjatmanesh-Ardakani, Muhammad Nawaz Tahir, Subhi A. Al-Jibori, M. Khairy, Mortaga M. Abou-Krisha, Emad M. Masoud, Christoph Wagner|2025|J.Mol.Struct.|1341|142637|doi:10.1016/j.molstruc.2025.142637
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mg5mx
title: CCDC 2426699: Experimental Crystal Structure Determination

description: Related Article: Xin-Yu Wei, Li Song, Yu Chen, Ying-Ying Zhang, Yu-Xin Zhang, Hao-Nan Hu, Yong Zhang, Xia-Qun Zeng, Zhou-Hang Jiang, Wen-Xiang Chai|2025|Polyhedron|277|117601|doi:10.1016/j.poly.2025.117601
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mg5ny
title: CCDC 2426700: Experimental Crystal Structure Determination

description: Related Article: Xin-Yu Wei, Li Song, Yu Chen, Ying-Ying Zhang, Yu-Xin Zhang, Hao-Nan Hu, Yong Zhang, Xia-Qun Zeng, Zhou-Hang Jiang, Wen-Xiang Chai|2025|Polyhedron|277|117601|doi:10.1016/j.poly.2025.117601
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mg5pz
title: CCDC 2426701: Experimental Crystal Structure Determination

description: Related Article: Xin-Yu Wei, Li Song, Yu Chen, Ying-Ying Zhang, Yu-Xin Zhang, Hao-Nan Hu, Yong Zhang, Xia-Qun Zeng, Zhou-Hang Jiang, Wen-Xiang Chai|2025|Polyhedron|277|117601|doi:10.1016/j.poly.2025.117601
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mg5q0
title: CCDC 2426702: Experimental Crystal Structure Determination

description: Related Article: Xin-Yu Wei, Li Song, Yu Chen, Ying-Ying Zhang, Yu-Xin Zhang, Hao-Nan Hu, Yong Zhang, Xia-Qun Zeng, Zhou-Hang Jiang, Wen-Xiang Chai|2025|Polyhedron|277|117601|doi:10.1016/j.poly.2025.117601
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mg5r1
title: CCDC 2426703: Experimental Crystal Structure Determination

description: Related Article: Xin-Yu Wei, Li Song, Yu Chen, Ying-Ying Zhang, Yu-Xin Zhang, Hao-Nan Hu, Yong Zhang, Xia-Qun Zeng, Zhou-Hang Jiang, Wen-Xiang Chai|2025|Polyhedron|277|117601|doi:10.1016/j.poly.2025.117601
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2mg5s2
title: CCDC 2426704: Experimental Crystal Structure Determination

description: Related Article: Xin-Yu Wei, Li Song, Yu Chen, Ying-Ying Zhang, Yu-Xin Zhang, Hao-Nan Hu, Yong Zhang, Xia-Qun Zeng, Zhou-Hang Jiang, Wen-Xiang Chai|2025|Polyhedron|277|117601|doi:10.1016/j.poly.2025.117601
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.