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61 results for “hybrid detection”
Hybrid Approaches to Detect Comments Violating Macro Norms on Reddit
<p>[<strong>Content warning: </strong><em>Files may contain instances of highly inflammatory and offensive content.]</em></p> <p><br> This dataset was generated as an extension of our <a href="https://www.cc.gatech.edu/~eshwar3/uploads/3/8/0/4/38043045/eshwar-norms-cscw2018.pdf">CSCW 2018 paper</a>:</p> <p><em>Eshwar Chandrasekharan, Mattia Samory, Shagun Jhaver, Hunter Charvat, Amy Bruckman, Cliff Lampe, Jacob Eisenstein, and Eric Gilbert. 2018. The Internet’s Hidden Rules: An Empirical Study of Reddit Norm Violations at Micro, Meso, and Macro Scales. Proceedings of the ACM on Human-Computer Interaction 2, CSCW (2018), 32.</em></p> <p><strong>Description:</strong></p> <p>Working with over 2M removed comments collected from 100 different communities on Reddit (subreddit names listed in data/study-subreddits.csv), we identified <strong>8 macro norms</strong>, i.e., norms that are widely enforced on most parts of Reddit. We extracted these macro norms by employing a hybrid approach—classification, topic modeling, and open-coding—on comments identified to be norm violations within at least 85 out of the 100 study subreddits. Finally, we labelled over 40K Reddit comments removed by moderators according to the specific type of macro norm being violated, and make this dataset publicly available (also available on <a href="https://github.com/ceshwar/reddit-norm-violations">Github</a>).</p> <p>For each of the labeled topics, we identified the top 5000 removed comments that were best fit by the LDA topic model. In this way, we identified over 5000 removed comments that are examples of each type of macro norm violation described in the paper. The removed comments were sorted by their topic fit, stored into respective files based on the type of norm violation they represent, and are made available on this repo.</p> <p>Here we make the following datasets publicly available:</p> <p>* <strong>1 file</strong> containing the log of over 2M removed comments obtained from the top 100 subreddits between May 2016 to March 2017, after filtering out the following comments: 1) comments by u/AutoModerator, 2) replies to removed comments (i.e., children of the poisoned tree - refer to the paper for more information), and 3) non-readable comments (not utf-8 encoded).</p> <p>* <strong>8 files</strong>, each containing 5000+ removed comments obtained from Reddit, are stored in: data/macro-norm-violations/ , and they are split into different files based on the macro norm they violated. Each new line in the files represent a comment that was posted on Reddit between May 2016 to March 2017, and subsequently removed by subreddit moderators for violating community norms. All comments were preprocessed using the script in code/preprocessing-reddit-comments.py , in order to do the following: 1. remove new lines, 2. convert text to lowercase, and 3. strip numbers and punctuations from comments.</p> <p><strong>Description of 1 file</strong> containing over<em> 2M removed comments </em>from <em>100 subreddits.</em></p> <ul> <li>"reddit-removal-log.csv" - all comments that were removed from the 100 study subreddits during the study period described above (post-filtering).</li> </ul> <p><strong>Descriptions of each file</strong> containing <em>5059 comments</em> (that were removed from Reddit, and preprocessed)<strong> violating macro norms </strong>present in data/macro-norm-violations/:</p> <ul> <li>"macro-norm-violations-n10-t0-misogynistic-slurs.csv" - Comments that use misogynistic slurs.</li> <li>"macro-norm-violations-n15-t2-hatespeech-racist-homophobic.csv" - Comments containing hate speech that is racist or homophobic.</li> <li>"macro-norm-violations-n10-t3-opposing-political-views-trump.csv", "macro-norm-violations-n15-t10-opposing-political-views-trump.csv" - Comments with opposing political views around Trump (depends on originating sub).</li> <li>"macro-norm-violations-n10-t4-verbal-attacks-on-Reddit.csv" - Comments containing verbal attacks on Reddit or specific subreddits.</li> <li>"macro-norm-violations-n10-t5-porno-links.csv" - Comments with pornographic links.</li> <li>"macro-norm-violations-n10-t8-personal-attacks.csv", "macro-norm-violations-n10-t9-personal-attacks.csv"- Comments containing personal attacks.</li> <li>"macro-norm-violations-n15-t3-abusing-and-criticisizing-mods.csv" - Comments abusing and criticisizng moderators.</li> <li>"macro-norm-violations-n15-t9-namecalling-claiming-other-too-sensitive.csv" - Comments with name-calling, or claiming that the other person is too sensitive.</li> </ul> <p>More details about the dataset can be found on arXiv: <a href="https://arxiv.org/abs/1904.03596">https://arxiv.org/abs/1904.03596</a></p>
A subset of the EMARS dataset in MY24 and MY26 converted from the sigma-p hybrid coordinate to the pressure coordinate and a list of local dust storms detected during the MYs in western Arcadia Planitia
<p>This dataset includes a subset of EMARS' background mean data (Greybush et al., 2019) converted from the sigma-p hybrid coordinate to the pressure coordinate. Only MY24 and MY26 were used to generate the figures shown in Ogohara (submitted to JGR Planets). <br>Updates from the original EMARS are:</p> <ul> <li>The vertical coordinate has been converted from the sigma-p hybrid coordinate to the pressure coordinate.</li> <li>The variables expressing the Earth date (e.g., year, month, day, etc.) have been combined into one variable, earth_date.</li> <li>A new variable, emars_date, has been created from emars_sol and mars_hour.</li> </ul> <p>In addition, this dataset provides two lists of local dust storms events during MY24 and MY26 which were detected in western Arcadia Planitia using a deep learning-based method proposed by Ogohara and Gichu (2022). The lists are:</p> <ul> <li>[Data Set S1] List of global image swath files examined. Only file names of MGS/MOC red band images are listed. The list consists of 5 columns indicating image ID, observation date, orbit number, solar longitude, and filter name (RED).</li> <li>[Data Set S2] List of global image swath files containing identified dust storms, as well as some attributes of the detected dust storms. Only file names of red band images are listed. The list consists of 7 columns indicating image ID, observation date, orbit number, solar longitude, center longitude and latitude, and area (km2.)</li> </ul>
Broadband microwave detection using electron spins in a hybrid diamond-magnet sensor chip
<p>Dataset accompanying "Broadband microwave detection using electron spins in a hybrid diamond-magnet sensor chip". </p>
Single-molecule Fluorescent In Situ Hybridization (smFISH) for RNA detection in the fungal pathogen Candida albicans dataset
<p><strong>This dataset is connected to the protocol article titled:</strong></p> <p>Single-molecule Fluorescent <em>In Situ</em> Hybridization (smFISH) for RNA detection in the fungal pathogen <em>Candida albicans</em></p> <p><strong>Abstract:</strong></p> <p><em>Candida albicans</em> is the most prevalent human fungal pathogen. Its pathogenicity is linked to the ability of <em>C. albicans</em> to reversibly change morphology and to grow as yeast, pseudohyphal or hyphal cells in response to environmental stimuli. Understanding the molecular regulation controlling those morphological switches remains a challenge that, if solved, could help fight <em>C. albicans</em> infections.</p> <p>While numerous studies investigated gene expression changes occurring during <em>C. albicans</em> morphological switches using bulk approaches (e.g., RNA sequencing), here we describe a single-cell and single-molecule RNA imaging and analysis protocol to measure absolute mRNA counts in morphologically intact cells. To detect endogenous mRNAs in single fixed cells, we optimized a single molecule fluorescent <em>in situ</em> hybridization (smFISH) protocol for <em>C. albicans</em>, which allows one to quantify the differential expression of mRNAs in yeast, pseudohyphae or hyphal cells. We quantified the expression of two mRNAs, cell cycle-controlled mRNA (<em>CLB2)</em> and a transcription regulator (<em>EFG1</em>), which show differential expression in the different morphological cell types and in different nutrient conditions. In this protocol we described in detail the major steps of this approach: growth and fixation, hybridization, imaging, cell-segmentation and mRNA spot analysis. Raw data is provided with the protocol to favour reproducibility. This approach could benefit the molecular characterization of <em>C. albicans</em> and other filamentous fungi, pathogenic or non-pathogenic.</p> <p><strong>Data description:</strong></p> <p>This dataset consists of a FISH experiment spanning two different mRNAs, EFG1 and CLB2, and two different nutrient condition, being SPIDER37 and TSB37 in Candida albicans. For culturing, the C. albicans wildtype strain SC5314 was inoculated at 30 degrees overnight (~15 hours) in 10 mL of TSB medium in a 30 degree (celsius) shaking incubator. Next, samples were diluted to a density of 10^5 cells/ mL and inoculated for 6 hours in either 30 mL TSB medium or Spider medium at 37 degrees in falcon tubes on an orbital microplate shaker. Then, samples were fixated by adding PFA to a final concentration of 4% to the medium. For hybridization, both mRNAs were hybridized independently by specific DNA oligo labelled with a Quasar670 dye to enable the visualisation of single mRNA molecules. As both genes are labelled by the same dye, these oligos were not co-applied to the same sample but to independent samples.</p> <p><strong>Microscopy</strong></p> <p>For smFISH imaging we use an Olympus BX-63 epifluorescence microscope equipped with Ultrasonic stage and UPlanApo 100x 1.35NA oil-immersion objective (Olympus). Lumencore SOLA FISH light source, a Hamamatsu ORCA-Fusion sCMOS camera (6.5 µm-pixel size) mounted using U-CMT C-Mount Adapter, and zero-pixel shift filter sets: F36-500 DAPI HC Brightline Bandpass Filter, F36-502 FITC HC BrightLine Filter, F36-542 Cy3 HC BrightLine Filter, and F36-523 Cy5 HC BrightLine Filter. Images are acquired across 61-81 optical sections (depending on the sample thickness) with a z-step size of 0.2 μm. The CellSens software (Olympus) is used for instrument control and image acquisition. For the DAPI channel 10-50 ms of exposure was used. Whilst, for the CY5 channel, used imaging the FISH probes, 750 ms was applied. </p> <p> </p>
Single-molecule Fluorescent In Situ Hybridization (smFISH) for RNA detection in the fungal pathogen Candida albicans small example dataset
<p><strong>This small example dataset is connected to the protocol article titled:</strong></p> <p>Single-molecule Fluorescent <em>In Situ</em> Hybridization (smFISH) for RNA detection in the fungal pathogen <em>Candida albicans</em></p> <p><strong>Abstract:</strong></p> <p><em>Candida albicans</em> is the most prevalent human fungal pathogen. Its pathogenicity is linked to the ability of <em>C. albicans</em> to reversibly change morphology and to grow as yeast, pseudohyphal or hyphal cells in response to environmental stimuli. Understanding the molecular regulation controlling those morphological switches remains a challenge that, if solved, could help fight <em>C. albicans</em> infections.</p> <p>While numerous studies investigated gene expression changes occurring during <em>C. albicans</em> morphological switches using bulk approaches (e.g., RNA sequencing), here we describe a single-cell and single-molecule RNA imaging and analysis protocol to measure absolute mRNA counts in morphologically intact cells. To detect endogenous mRNAs in single fixed cells, we optimized a single molecule fluorescent <em>in situ</em> hybridization (smFISH) protocol for <em>C. albicans</em>, which allows one to quantify the differential expression of mRNAs in yeast, pseudohyphae or hyphal cells. We quantified the expression of two mRNAs, cell cycle-controlled mRNA (<em>CLB2)</em> and a transcription regulator (<em>EFG1</em>), which show differential expression in the different morphological cell types and in different nutrient conditions. In this protocol, we described in detail the major steps of this approach: growth and fixation, hybridization, imaging, cell-segmentation and mRNA spot analysis. Raw data is provided with the protocol to favour reproducibility. This approach could benefit the molecular characterization of <em>C. albicans</em> and other filamentous fungi, pathogenic or non-pathogenic.</p> <p><strong>Data description:</strong></p> <p>This dataset consists of a FISH experiment spanning two different mRNAs, EFG1 and CLB2, and one nutrient condition, SPIDER37, in Candida albicans. For culturing, the C. albicans wildtype strain SC5314 was inoculated at 30 degrees overnight (~15 hours) in 10 mL of TSB medium in a 30 °C shaking incubator. Next, samples were diluted to a density of 10^5 cells/ mL and inoculated for 6 hours in 30 mL Spider medium at 37 °C in falcon tubes on an orbital microplate shaker. Then, samples were fixated by adding PFA to a final concentration of 4% to the medium. For hybridization, both mRNAs were hybridized independently by specific DNA oligo labelled with a Quasar670 dye to enable the visualisation of single mRNA molecules. As both genes are labelled by the same dye, these oligos were not co-applied to the same sample but to independent samples.</p> <p><strong>Microscopy</strong></p> <p>For smFISH imaging we use an Olympus BX-63 epifluorescence microscope equipped with Ultrasonic stage and UPlanApo 100x 1.35NA oil-immersion objective (Olympus). Lumencore SOLA FISH light source, a Hamamatsu ORCA-Fusion sCMOS camera (6.5 µm-pixel size) mounted using U-CMT C-Mount Adapter, and zero-pixel shift filter sets: F36-500 DAPI HC Brightline Bandpass Filter, F36-502 FITC HC BrightLine Filter, F36-542 Cy3 HC BrightLine Filter, and F36-523 Cy5 HC BrightLine Filter. Images are acquired across 61-81 optical sections (depending on the sample thickness) with a z-step size of 0.2 μm. The CellSens software (Olympus) is used for instrument control and image acquisition. For the DAPI channel 10-50 ms of exposure was used. Whilst, for the CY5 channel, used for imaging the FISH probes, 750 ms was applied. </p>
Hybridized, Physics-Based Melt Detection for 13 Antarctic sites v2
<p>An (updated) dataset of 13 Antarctic sites with microwave grain size (exponential correlation lengths/p_exp) as well as melt day detection using the Hybrid Method. The Hybrid Method combines the Community Firn Model and the Snow Microwave Radiative Transfer model with AMSR-2 to detect melt days. </p>
Detection of genetic alterations in gastric cancer patients from Saudi Arabia using comparative genomic hybridization (CGH)
<p>Abstract</p> <p>Background: The present study was conducted to discover genetic imbalances such as DNA copy number variations (CNVs) associated with gastric cancer (GC) and to examine their association with different genes involved in the process of gastric carcinogenesis in Saudi population. </p> <p>Methods: Formalin-fixed paraffin-embedded (FFPE) tissues samples from 33 gastric cancer patients and 15 normal gastric samples were collected. Early and late stages GC samples were genotyped and CNVs were assessed by using Illumina HumanOmni1-Quad v.1.0 BeadChip. </p> <p>Results: Copy number gains were more frequent than losses throughout all GC samples compared to normal tissue samples. The mean number of the altered chromosome per case was 64 for gains and 40 for losses, and the median aberration length was 679115bp for gains and 375889bp for losses. We identified 7 high copy gain, 52 gains, 14 losses, 32 homozygous losses, and 10 copy neutral LOHs (loss of heterozygosities). Copy number gains were frequently detected at 1p36.32, 1q12, 1q22, 2p11.1, 4q23-q25, 5p12-p11, 6p21.33, 9q12-q21.11, 12q11-q12, 14q32.33, 16p13.3, 17p13.1, 17q25.3, 19q13.32, and losses at 1p36.23, 1p36.32, 1p32.1, 1q44, 3q25.2, 6p22.1, 6p21.33, 8p11.22, 10q22.1, 12p11.22, 14q32.12 and 16q24.2. We also identified 2 monosomy at chromosome 14 and 22, 52 partially trisomy and 22 whole chromosome 4 neutral loss of heterozygosities at 13q14.2-q21.33, 5p15.2-p15.1, 5q11.2-q13.2, 5q33.1-q34 and 3p14.2-q13.12. Furthermore, 11 gains and 2 losses at 1p36.32 were detected for 11 different GC samples and this region has not been reported before in other populations. Statistical analysis confirms significant association of H. pylori infection with T4 stage of GC as compare to control and other stages.</p>
Database for comparison between Hybrid Capture and PCR techniques for HPV-HR detection
<p>This database displays the results from the HPV-HR detection with the gold standard technique Hybrid Capture 2 (HC2) and different PCR-based techniques. These results are compared in order to determine the degree of agreement between theses techniques. </p>
DAS Data for the figure in the paper entitled "A Hybrid Earthquake Detection Method for Distributed Acoustic Sensing Array Data and Its Application to the 2022 Menyuan Earthquake Sequence"
<p>The DAS data can be loaded using numpy. The sampling rate is 100 Hz, and each row is a time series for that channel.</p>
A comprehensive approach to detect hybridization sheds light on the evolution of Earth's largest lizards
<p>Hybridization between species occurs more frequently in vertebrates than traditionally thought, but distinguishing ancient hybridization from other phenomena that generate similar evolutionary patterns remains challenging. Here, we used a comprehensive workflow to discover evidence of ancient hybridization between the Komodo dragon (<em>Varanus komodoensis</em>) from Indonesia and a common ancestor of an Australian group of monitor lizards known colloquially as sand monitors. Our data comprise >300 nuclear loci, mitochondrial genomes, phenotypic data, fossil and contemporary records, and past/present climatic data. We show that the four sand monitor species share more nuclear alleles with <em>V</em>. <em>komodoensis</em> than expected given a bifurcating phylogeny, likely as a result of hybridization between the latter species and a common ancestor of sand monitors. Sand monitors display phenotypes that are intermediate between their closest relatives and <em>V</em>. <em>komodoensis</em>. Biogeographic analyses suggest that <em>V</em>. <em>komodoensis</em> and ancestral sand monitors co-occurred in northern Australia. In agreement with the fossil record, this provides further evidence that the Komodo dragon once inhabited the Australian continent. Our study shows how different sources of evidence can be used to thoroughly characterize evolutionary histories that deviate from a treelike pattern, that hybridization can have long-lasting effects on phenotypes, and that detecting hybridization can improve our understanding of evolutionary and biogeographic patterns.</p>
A comprehensive approach to detect hybridization sheds light on the evolution of Earth’s largest lizards
Open the record for dataset details and reuse information.
Data from: Genetic architecture in a marine hybrid zone: comparing outlier detection and genomic clines analysis in the bivalve Macoma balthica
The role of natural selection in speciation has received increasing attention and support in recent years. Different types of approaches have been developed that can detect genomic regions influenced by selection. Here we address the question whether two highly different methods - Fst outlier analysis and admixture analysis - detect largely the same set of non-neutral genomic elements or, instead, complementary sets. We study genetic architecture in a natural secondary contact zone where extensive admixture occurs. The marine bivalves Macoma balthica rubra and M. b. balthica descend from two independent trans-Arctic invasions of the north Atlantic and hybridize extensively where they meet, for example in the Kattegat - Danish Straits - Baltic Sea region. The Kattegat - Danish Straits region forms a steep salinity cline and is the only entrance to the recently (ca 8000 years ago) established brackish water basin the Baltic Sea. Salinity along the contact zone drops from 30‰ (Skagerrak, M.b.rubra) to 3‰ (Baltic, M.b.balthica). Both outlier analysis and genomic clines analysis suggest that large parts of the genome are influenced by non-neutral effects. Contrasting samples from well outside the hybrid zone, outlier analysis detects 16 of 84 amplified fragment length polymorphism (AFLP) markers as significant Fst outliers. Genomic clines analysis detects 31 out of 84 markers as non-neutral inside the hybrid zone. Remarkably, only three markers are detected by both methods. We conclude that the two methods together identify a suite of markers that are under the influence of non-neutral effects.
Data from: Towards a genome-wide approach for detecting hybrids: informative SNPs to detect introgression between domestic cats and European wildcats (Felis silvestris)
Endemic gene pools have been severely endangered by human-mediated hybridization, which is posing new challenges in the conservation of several vertebrate species. The endangered European wildcat is an example of this problem, as several natural populations are suffering introgression of genes from the domestic cat. The implementation of molecular methods for detecting hybridization is crucial for supporting appropriate conservation programs on the wildcat. In this study, genetic variation at 158 single-nucleotide polymorphisms (SNPs) was analyzed in 139 domestic cats, 130 putative European wildcats and 5 captive-bred hybrids (N=274). These SNPs were variable both in wild (HE=0.107) and domestic cats (HE=0.340). Although we did not find any SNP that was private in any population, 22 SNPs were monomorphic in wildcats and pairwise FCT values revealed marked differences between domestic and wildcats, with the most divergent 35 loci providing an average FCT>0.74. The power of all the loci to accurately identify admixture events and discriminate the different hybrid categories was evaluated. Results from simulated and real genotypes show that the 158 SNPs provide successful estimates of admixture, with 100% hybrid individuals (two to three generations in the past) being correctly identified in STRUCTURE and over 92% using the NEWHYBRIDS' algorithm. None of the unclassified cats were wrongly allocated to another hybrid class. Thirty-five SNPs, showing the highest FCT values, provided the most parsimonious panel for robust inferences of parental and first generations of admixed ancestries. This approach may be used to further reconstruct the evolution of wildcat populations and, hopefully, to develop sound conservation guidelines for its legal protection in Europe.
Underlying dataset of Experts and Machines against Bullies: A Hybrid Approach to Detect Cyberbullies
<p>YouTube data collection for cyberbullying studies. </p><p>Citation:</p><p>M. Dadvar, R.B. Trieschnigg and F.M.G. de Jong, Experts and Machines Against Bullies: A Hybrid Approach to Detect Cyberbullies. In 27th Canadian Conference on Artificial Intelligence, University of Waterloo, Montréal, Canada, 2014</p>
Supplementary data for the article: "Towards an widely applicable earthquake detection algorithm for fibreoptic and hybrid fibreoptic-seismometer networks"
<p>Repository of supporting data associated with the article submitted to GJI, titled: "Towards an widely applicable earthquake detection algorithm for fibreoptic and hybrid fibreoptic-seismometer networks".</p> <p> </p> <p>Contents include:</p> <ol> <li>A full working example of modified QuakeMigrate version and seismic time-series data used to detect an earthquake.</li> <li>Earthquake catalogues for the three datasets described in the publication.</li> </ol>
Data from: Detecting hybridization by likelihood calculation of gene tree extra lineages given explicit models
Explanations for gene tree discordance with respect to a species tree are commonly attributed to deep coalescence (also known as incomplete lineage sorting [ILS]), as well as different evolutionary processes such as hybridization, horizontal gene transfer and gene duplication. Among these, deep coalescence is usually quantified as the number of extra lineages and has been studied as the principal source of discordance among gene trees, while the other processes that could contribute to gene tree discordance have not been fully explored. This is an important issue for hybridization because interspecific gene flow is well documented and widespread across many plant and animal groups. Here, we propose a new way to detect gene flow when ILS is present that evaluates the likelihood of different models with various levels of gene flow, by comparing the expected gene tree discordance, using the number of extra lineages. This approach consists of proposing a model, simulating a set of gene trees to infer a distribution of expected extra lineages given the model, and calculating a likelihood function by comparing the fit of the real gene trees to the simulated distribution. To count extra lineages, the gene tree is first reconciled within the species tree, and for a given species tree branch the number of gene lineages minus one is counted. We develop a set of R functions to parallelize software to allow simulations, and to compare hypotheses via a likelihood ratio test to evaluate the presence of gene flow when ILS is present, in a fast and simple way. Our results show high accuracy under very challenging scenarios of high impact of ILS and low gene flow levels, even using a modest dataset of five to ten loci and five to ten individuals per species. We present a powerful and fast method to detect hybridization in presence of ILS. We discuss its advantage with large dataset (such as genomic scale), and also identifies possible issues that should be explored with more complex models in future studies.
UCE phylogenomics, detection of a putative hybrid population, and one older mitogenomic node age of Batrachuperus salamanders
<p>The prevalence of incomplete lineage sorting complicates the examination of hybridization and species-level paraphyly with gene trees of a small number of loci. In Asian mountain salamanders of the genus <i>Batrachuperus</i>, possible hybridization and species paraphyly had been identified by utilizing mitochondrial genealogy and fixed allozyme differences. Here we sampled 2909 UCEs in 44 local populations from all six <i>Batrachuperus</i> species, inferred gene and species trees, compared them with mitochondrial and allozyme results, and examined the potential hybridization and species paraphyly. The clustering pattern of single-locus trees, increased proportion of heterozygous SNPs, allele frequency-based migration edge estimation, and intrapopulation long branches (as expected from an increase of genetic lineage and nucleotide diversity) support that an eastern <i>B. karlschmidti</i> population has experienced admixture with <i>B. tibetanus</i>. On the 2909-UCE concatenated and species trees, lower nodal supports were observed when similar proportions of loci agreed with alternative topologies, i.e., a reciprocal monophyly between a Pengxian lineage and the remainder of <i>B. pinchonii</i> (0.379) or a paraphyly of the latter with respect to Pengxian (0.362). The UCE phylogenomics agreed with the relatively recent groupings in the allozyme dendrogram. Despite incomplete lineage sorting, the mitochondrial trees were similar to the UCE trees for deeper relationships of the genus. However, one significant branch-length level discordance was identified. The branch between the common ancestor of <i>B. daochengensis</i> and <i>B. yenyuanensis</i> and common ancestor of the genus was approximately three times shorter on the mitochondrial tree than on the UCE tree, suggesting that the split of the mitochondrial lineages was likely a few million years earlier than the split of species. This finding supports considering possible ancestral polymorphism when interpreting different divergence dates estimated from mitochondrial and genome-wide data.</p>
Multiple Sclerosis lesions detection by a hybrid Watershed-Clustering algorithm
<p>Computer Aided Diagnosis (CAD) systems have been developing in the last years with the aim of helping the diagnosis and monitoring of several diseases. We present a novel CAD system based on a hybrid Watershed-Clustering algorithm for the detection of lesions in Multiple Sclerosis. Magnetic Resonance Imaging scans (FLAIR sequences without gadolinium) of 20 patients affected by Multiple Sclerosis with hyperintense lesions were studied. The CAD system consisted of the following automated processing steps: images recording, automated segmentation based on the Watershed algorithm, detection of lesions, extraction of both dynamic and morphological features, and classification of lesions by Cluster Analysis. The investigation was performed on 316 suspect regions including 255 lesion and 61 non-lesion cases. The Receiver Operating Characteristic analysis revealed a highly significant difference between lesions and non-lesions; the diagnostic accuracy was 87% (95% CI: 0.83–0.90), with an appropriate cut-off of 192.8; the sensitivity was 77% and the specificity was 87%. In conclusion, we developed a CAD system by using a modified algorithm for automated image segmentation which may discriminate MS lesions from non-lesions. The proposed method generates a detection out-put that may be support the clinical evaluation.</p>
Viable Myocardium Detected by Hybrid PET/MR and SPECT for the Prediction of the Efficacy of PCI in Patients With CTO.
ClinicalTrials.gov study NCT06113835. IPD Sharing: NO. Countries: 1. Publications: 10.
Accuracy of an AI-clinical Knowledge-based Hybrid System for Detecting Periodontitis in OPG Images
ClinicalTrials.gov study NCT06306677. IPD Sharing: NO. Countries: 3. Publications: 1.
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.