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Appendix. List of the 28S and 16S rRNA sequences recovered from GenBank. 28S = 28S rRNA GenBank accession number; 16S = 16S rRNA GenBank accession number. in Genetic and morphological evidence for cryptic species in Macrobrachium australe and resurrection of M. ustulatum (Crustacea, Palaemonidae)
Appendix. List of the 28S and 16S rRNA sequences recovered from GenBank. 28S = 28S rRNA GenBank accession number; 16S = 16S rRNA GenBank accession number.
Appendix Morphometric parameters of Chaetonotus (Chaetonotus) antrumus Kolicka sp. nov. Abbreviations: N = number of specimens or structures analysed; Range = the smallest and the largest structure measurement found among all specimens measured; SD = standard deviation. All measurements are given in micrometers (μm); all indicators are given as a percentage (%) and italicized. in A new species of freshwater Chaetonotidae (Gastrotricha, Chaetonotida) from Obodska Cave (Montenegro) based on morphological and molecular characters
Appendix Morphometric parameters of Chaetonotus (Chaetonotus) antrumus Kolicka sp. nov. Abbreviations: N = number of specimens or structures analysed; Range = the smallest and the largest structure measurement found among all specimens measured; SD = standard deviation. All measurements are given in micrometers (μm); all indicators are given as a percentage (%) and italicized.
Data from: Estimation of regional annual abundance and evidence for increasing numbers of white sharks off central California
<p>Raw data consisting of individual identification photographs of white sharks (Carcharodon carcharias) and data table with corresponding metadata. These data support PhD thesis of Paul E. Kanive entitled "VITAL RATES, ANNUAL ABUNDANCE, AND MOVEMENT OF WHITE SHARKS IN THE NORTHEASTERN PACIFIC" and peer-reviewed manuscript "Estimation of regional annual abundance and evidence for increasing numbers of white sharks off central California."</p>
Genbank accession numbers of sequences used in the phylogenetic analysis
<p><em>Phylogenetic analysis: </em>Sequences were assembled using Lasergene v15 (DNASTAR, Inc. Madison, USA), and combined with sequences obtained from Genebank</p>
Database used for the supervised learning of few dirty bosons with variable particle number
<p>This dataset includes files with points of different disordered potentials and their corresponding ground state energies depending on the number of particles of the system (N=1,2,3,4). It has been used to train a neural network. </p>
Grouping strategies in number estimation extend the subitizing range
<p>In the calculation folder: each file contains a matrix called “MATR”. Each row of the matrix “MATR” is a trial. </p> <p>The columns contain the following information:</p> <p>1<sup>st</sup>: Number of trial</p> <p>2<sup>nd: Subject response</sup></p> <p>4<sup>th</sup>: Response time</p> <p>5<sup>th</sup>: first number </p> <p>6<sup>th</sup>: math symbol (1=*; 2= +; 3= –)</p> <p>7<sup>th</sup>: second number </p> <p>8<sup>th</sup>: third number </p> <p> </p> <p>In the calculation folder: each file contains a matrix called “matr”. Each row of the matrix “matr” is a trial. </p> <p>The columns contain the following information:</p> <p>1<sup>st</sup>: subject response in the numerosity task</p> <p>2<sup>nd</sup>: the presented numerosity </p> <p>3<sup>rd</sup>: subject response in the numerosity task</p> <p>4<sup>th</sup>: zero</p> <p>5<sup>th</sup>: stimulus duration</p> <p>6<sup>th</sup>: Response time in the numerosity task</p> <p>7<sup>th</sup>: Grouped (1) or random (2) presentation </p> <p>8<sup>th</sup>: 1</p> <p>9<sup>th</sup>: 1</p> <p>10<sup>th</sup>: Number of items of the upper-left quadrant</p> <p>11<sup>th</sup>: Number of items of the lower-left quadrant</p> <p>12<sup>th</sup>: Number of items of the upper-right quadrant</p> <p>13<sup>th</sup>: Number of items of the lower - right quadrant</p> <p>14<sup>th</sup>: odd shape presented (1=diamond; 2=triangle; 3=circle)</p> <p>15<sup>th</sup>: subject response in the shape task</p> <p>16<sup>th</sup>: 0.2 in the single task response time in the shape task when dual task</p> <p>17<sup>th</sup>: single (0) or dual (1) task</p> <p>18<sup>th</sup>: time stimulus on</p> <p>19<sup>th</sup>: time stimulus off</p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p>
Picosecond time-resolved antibunching measures nanoscale exciton motion, annihilation, and true number of chromophores
<p>The particle-like nature of light becomes evident in the photon statistics of fluorescence of single quantum systems as photon antibunching. In multichromophoric systems, exciton diffusion and subsequent annihilation occur. These processes also yield photon antibunching but cannot be interpreted reliably. Here, we develop picosecond time-resolved antibunching (psTRAB) to identify and decode such processes. We use psTRAB to measure the true number of chromophores on well-defined multichromophoric DNA-origami structures, and precisely determine the distance-dependent rates of annihilation between excitons. Further, psTRAB allows us to measure exciton diffusion in mesoscopic H- and J-type conjugated-polymer aggregates. We distinguish between one-dimensional intra-chain and three-dimensional inter-chain exciton diffusion at different times after excitation and determine the disorder-dependent diffusion lengths. Our method provides a new lens through which excitons can be studied at the single-particle level, enabling the rational design of improved excitonic probes such as ultra-bright fluorescent nanoparticles, and materials for optoelectronic devices. Here we demonstrate the raw data of DNA Origami Microscopy on which our findings based on. </p>
Association between meteorological factors and the number of tuberculosis notifications: a time-series study in Hong Kong
<p> Using a 22-year consecutive surveillance data in Hong Kong, including monthly averages of meteorological factors, air pollution concentrations , total number of TB cases notified, to analyze the association of monthly average temperature and relative humidity with temporal dynamics of monthly total number of TB cases notified. </p>
Analysis of copy number variation in dogs implicates genomic structural variation in the development of anterior cruciate ligament rupture
<p>Anterior cruciate ligament (ACL) rupture is an important condition of the human knee. Second ruptures are common and societal costs are substantial. Canine cranial cruciate ligament (CCL) rupture closely models the human disease. CCL rupture is common in the Labrador Retriever (5.79% prevalence), ~100-fold more prevalent than in humans. Labrador Retriever CCL rupture is a polygenic complex disease, based on genome-wide association study (GWAS) of single nucleotide polymorphism (SNP) markers. Dissection of genetic variation in complex traits can be enhanced by studying structural variation, including copy number variants (CNVs). Dogs are an ideal model for CNV research because of reduced genetic variability within breeds and extensive phenotypic diversity across breeds. We studied the genetic etiology of CCL rupture by association analysis of CNV regions (CNVRs) using 110 case and 164 control Labrador Retrievers. CNVs were called from SNPs using three different programs (PennCNV, CNVPartition, and QuantiSNP). After quality control, CNV calls were combined to create CNVRs using ParseCNV and an association analysis was performed. We found no strong effect CNVRs but found 46 small effect (max(T) permutation P<0.05) CCL rupture associated CNVRs in 22 autosomes; 25 were deletions and 21 were duplications. Of the 46 CCL rupture associated CNVRs, we identified 39 unique regions. Thirty four were identified by a single calling algorithm, 3 were identified by two calling algorithms, and 2 were identified by all three algorithms. For 42 of the associated CNVRs, frequency in the population was <10% while 4 occurred at a frequency in the population ranging from 10-25%. Average CNVR length was 198,872bp and CNVRs covered 0.11 to 0.15% of the genome. All CNVRs were associated with case status. CNVRs did not overlap previous canine CCL rupture risk loci identified by GWAS. Associated CNVRs contained 152 annotated genes; 12 CNVRs did not have genes mapped to CanFam3.1. Using pathway analysis, a cluster of 19 homeobox domain transcript regulator genes was associated with CCL rupture (P=6.6E-13). This gene cluster influences cranial-caudal body pattern formation during embryonic limb development. Clustered genes were found in 3 CNVRs on chromosome 14 (HoxA), 28 (NKX6-2), and 36 (HoxD). When analysis was limited to deletion CNVRs, the association was strengthened (P=8.7E-16). This study suggests a component of the polygenic risk of CCL rupture in Labrador Retrievers is associated with small effect CNVs and may include aspects of stifle morphology regulated by homeobox domain transcript regulator genes.</p>
Why has the number of COVID-19 confirmed cases in Africa been insignificant compared to other regions? A descriptive analysis
<p>Method</p> <p>The dataset contains several confirmed COVID-19 cases, number of deaths, and death rate in six regions. The objective of the study is to compare the number of confirmed cases in Africa to other regions. </p> <p>Death rate = Total number of deaths from COVID-19 divided by the Total Number of infected patients.</p> <p>The study provides evidence for the country-level in six regions by the World Health Organisation's classification.</p> <p>Findings</p> <p>Based on the descriptive data provided above, we conclude that the lack of tourism is one of the key reasons why COVID-19 reported cases are low in Africa compared to other regions. We also justified this claim by providing evidence from the economic freedom index, which indicates that the vast majority of African countries recorded a low index for a business environment. On the other hand, we conclude that the death rate is higher in the African region compared to other regions. This points to issues concerning health-care expenditure, low capacity for testing for COVID-19, and poor infrastructure in the region.</p> <p>Apart from COVID-19, there are significant pre-existing diseases, namely; Malaria, Flu, HIV/AIDS, and Ebola in the continent. This study, therefore, invites the leaders to invest massively in the health-care system, infrastructure, and human capital in order to provide a sustainable environment for today and future generations. Lastly, policy uncertainty has been a major issue in determining a sustainable development goal on the continent. This uncertainty has differentiated Africa to other regions in terms of stepping up in the time of global crisis.</p> <p> </p>
Accession numbers in supplementary files
<p>This dataset contains database accession numbers which are automatically extracted from the supplementary files linked to open access full text biomedical articles.</p>
Total numbers and shares of Open Access Journals using Creative Commons Licenses as listed by the Directory of Open Access Journals
<p>This table provides information on the number and percentage of Open Access Journals listed by the Directory of Open Access Journals using a Creative Commons License. It identifies also the number and share of Journals using CC-Licenses that are compatible to the Open Definition.</p>
A list of collection codes and corresponding BOLD numbers to sixty new dragonfly and damselfly species from Africa
<p>These files contain the data and accession numbers used in the following publication:</p> <p>Dijkstra, Klaas-Douwe B. et al.. (2015). Sixty new dragonfly and damselfly species from Africa (Odonata). Odonatologica 44(4): 447-678. doi:10.5281/zenodo.35388</p> <p>Contents</p> <p>- Lab (BOLD numbers)<br /> - Vouchers<br /> - Taxonomy<br /> - Specimen details<br /> - CollectionData</p> <p> </p> <p>uploaded for Odonatologica by Plazi</p>
Extract Article Numbers by Publisher from ZORA
<p>Pentaho Transformation to Extract Metadata from EPrints XML-Export:</p> <ol> <li>Download/Install Pentaho Data Integration (Free community Edition) from: http://sourceforge.net/projects/pentaho/files/Data%20Integration/</li> <li>Download EP3-XML-Export from: http://www.zora.uzh.ch/cgi/search/archive/advanced?screen=Search&dataset=archive&type=article&date%2Fevent_end=2008-2015&_action_search=Search</li> <li>Move ZORA Export XML in the same directory as the Pentaho Script "Extract Article Number by Publisher ZORA.ktr"</li> <li>Rename Export File like "export_zora_XML_articles_01.01.2016.xml" or change the source name in the XML importstep "Get data from ZORA Export XML"</li> <li>Run Script which creates csv files with the results in the directory</li> </ol>
FIGURES 28 30 in Crozetia Davies (Diptera: Simuliidae): redescription of Cr. crozetensis, Cr. seguyi, number of larval instars, phylogenetic relationships and historical biogeography
FIGURES 28 30. Mouthparts of first instar Crozetia seguyi larvae. 28. Labral fan. Scale bar = 0.02 mm. 29. Larval hypostoma. Scale bar = 0.02 mm. 30. Larval mandibles. Scale bar = 0.02 mm. Abbreviations: lb labral fan; hyps hypostoma; mnd mandible.
FIGURE 3 in Crozetia Davies (Diptera: Simuliidae): redescription of Cr. crozetensis, Cr. seguyi, number of larval instars, phylogenetic relationships and historical biogeography
FIGURE 3. Rivière du Camp, Possession Island, Crozet Islands, 1979. A typical habitat of Crozetia larvae. Pic du Mascarin (alt. 934 m) is in the background. (Courtesy, L. Davies).
FIGURE 2 in Crozetia Davies (Diptera: Simuliidae): redescription of Cr. crozetensis, Cr. seguyi, number of larval instars, phylogenetic relationships and historical biogeography
FIGURE 2. Islands of the Crozet Archipelago. Bathymetric contours in meters. (Adapted from Boudon and Nougier 1982).
FIGURES 15 - 19. Crozetia. 15 in Crozetia Davies (Diptera: Simuliidae): redescription of Cr. crozetensis, Cr. seguyi, number of larval instars, phylogenetic relationships and historical biogeography
FIGURES 15 - 19. Crozetia. 15. Cr. crozetensis, male paratype wing. Scale bar = 0.5 mm. 16. Cr. seguyi, higher magnification of male wing base. Scale bar = 0.5 mm. 17. Cr. seguyi, SEM of last instar larval head, frontal view. Scale bar = 0.1 mm. 18. Cr. crozetensis, LM of last instar larval head, dorsal view. Scale bar = 0.1 mm. 19. Cr. seguyi, LM of last instar larval head, dorsal view. Scale bar = 0.1 mm. Abbreviations: ant - antenna; ca - cephalic apotome; lf - labral fan; hyps - hypostoma; mnd - mandible; mx - maxilla; mxp - maxillary palpus.
FIGURES 13 - 14. Crozetia pupae. Left lateral views. 13 in Crozetia Davies (Diptera: Simuliidae): redescription of Cr. crozetensis, Cr. seguyi, number of larval instars, phylogenetic relationships and historical biogeography
FIGURES 13 - 14. Crozetia pupae. Left lateral views. 13. Cr. crozetensis. 14. Cr. seguyi. Note rudimentary cocoon on posterior. Scale bar = 1.0 mm.
GenBank accession numbers
Explanation note: GenBank accession numbers of the sequences used in the multi-gene phylogenetic analysis.
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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.