Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
1,880
datasets available to search
ShareScore release 0.9.0
Dataset results
1,880 results for “Dimensionality”
Retinoic acid induced meiosis initiation of female germline stem cells by remodeling three-dimensional chromatin structure
GEO Series GSE195971. Mus musculus. 10 samples. Type: Expression profiling by high throughput sequencing; Other.
Molecular Evidence for a Dimensional Basis of Depression
GEO Series GSE44593. Homo sapiens. 28 samples. Type: Expression profiling by array.
Pseudogenes contribute to the evolution of topological domains across species via forming three-dimensional genome [ChIP-seq]
GEO Series GSE246285. Homo sapiens. 8 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
A histone hyperacetylation pulse induces cellular memory of gene expression and 3-dimensional genome folding [microC_2]
GEO Series GSE280495. Mus musculus. 5 samples. Type: Other.
Novel human full-thickness three-dimensional non-keratinized mucous membrane model for pharmacological studies in wound healing
GEO Series GSE119035. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
Large-eddy simulation of turbulent oscillatory flow over three-dimensional transient vortex ripple geometries in quasi-equilibrium
<p>dataset for figures of 'Large-eddy simulation of turbulent oscillatory flow over three-dimensional transient vortex ripple geometries in quasi-equilibrium'</p>
Dataset related to the article 'Diagnostic Accuracy of Transillumination in Mitral Valve Prolapse: Side-by-Side Comparison of Standard Transthoracic Three-Dimensional Echocardiography against Surgical Findings'
<p>This record contains raw data related to the article 'Diagnostic Accuracy of Transillumination in Mitral Valve Prolapse: Side-by-Side Comparison of Standard Transthoracic Three-Dimensional Echocardiography against Surgical Findings'</p> <p>In patients with mitral valve (MV) prolapse (MVP) eligible for surgery, three-dimensional echocardiography (3DE) is routinely used for pre-operative assessment. Despite the worldwide use of transesophageal echocardiography in this context, transthoracic echocardiography (TTE) allows accurate noninvasive evaluation of MV anatomy and pathology in patients with good acoustic windows. Transillumination (TI) is a new 3D tool that improves the visualization of cardiac structures due to shadow effects achieved by the use of a virtual light source. We aimed to compare the diagnostic accuracy of TTE TI side-by-side with standard 3DE (s3DE) display in patients undergoing surgery for MVP, using surgical valve inspection as a reference standard.</p> <p>We prospectively studied 59 patients with good acoustic windows on TTE, undergoing surgery for MVP. The study was approved by the institutional review board with a written informed consent. 3D MV analysis, including evaluation of scallops, chordal rupture and cleft was performed using s3DE and TI. Data were acquired by two experienced operators using zoomed acquisition mode over 4 to 6 cardiac cycles and processed by adjusting gain, brightness and smoothing. For TI images, the virtual light source was set in the left ventricle to enhance MV visualization. At the end of each TTE study, a first reader analyzed post-processed s3DE images and, one week later, the TI images. Surgical findings of MV anatomy were collected and agreement was expressed using Cohen’s concordance coefficient kappa, sensitivity, specificity, negative and positive predictive value (NPV, PPV) and overall accuracy. A second reader, blinded to all prior measurements, repeated TI analysis to assess reproducibility using intraclass correlation coefficients (ICC). </p> <p>No differences were noted in etiological diagnosis (Myxomatous vs Fibroelastic Deficiency) between the two 3DE techniques and surgery. Based on s3DE, 53 patients (90%) were diagnosed with P<sub>2</sub> flail secondary to chordal rupture (N=51, 86%) or elongation (N=2, 14%). A cleft was diagnosed in 10 cases (17%), mostly located in the posterior leaflet. Based on TI, 53 patients (88%) were diagnosed with P<sub>2</sub> flail secondary to chordal rupture (N=48, 81%) or elongation (N=5, 19%). In 9 patients (15%) a cleft was found, mainly located in the posterior leaflet.</p> <p>The reproducibility of TI was good for prolapse detection (ICC=0.78) and chordal rupture localization (ICC= 0.73) and fair for cleft identification (ICC= 0.66). Overall, compared to the surgical reference, TI was significantly more accurate than s3DE for the identification of prolapse (94% vs 89%), chordal rupture (98% vs 92%) and cleft localization (87% vs 54%).</p> <p>Specifically, s3DE correctly detected the flail in the majority of patients (N=57, 97%); in 20 patients (34%), at least one scallop was erroneously diagnosed as prolapsing, while in 4 patients (7%), a second prolapsing scallop was missed by s3DE. In 2 cases (3%) the real flail was missed. Agreement between s3DE and surgery in prolapse identification was poor (kappa=0.30). By TI, the flail was correctly diagnosed in 57 cases (97%), while in 7 patients (12%) there was an over-diagnosis and in 4 cases (7%) an under-diagnosis. In 1 patient (2%), the flail was missed by TI. The agreement between TI and surgery in prolapse detection was considerably better (kappa=0.60). A significant difference (p<0.05) was found between s3DE and TI in sensitivity (87% vs 91%), specificity (92% vs 97%), PPV (75% vs 87%) and NPV (96% vs 98%) in scallop’s prolapse identification.</p> <p>Chordal rupture was diagnosed in 51 patients (86%) by s3DE, compared to 45 (76%) cases confirmed by surgery. Among these 45 patients, s3DE correctly identified rupture position in 41 (91%). The agreement between s3DE and surgery was moderate (kappa=0.43). In contrast, TI identified chordal rupture in 48 cases (81%); among 45 patients confirmed by surgery TI detected the correct rupture position in 44 (98%), resulting in a very good agreement (kappa=0.86). Compared to s3DE, TI showed a significant difference (p<0.05) in sensitivity (89% vs 98%), specificity (95% vs 99%), PPV (74% vs 94%) and NPV (96% vs 99%) in chordal rupture recognition.</p> <p>The agreement with surgery in terms of localization of cleft by s3DE was poor (k=0.17). Surgical valve inspection reported 8 cases (14%) with MV cleft (2 cleft of the anterior leaflet and 6 indentations of the posterior leaflet), only one was correctly diagnosed by s3DE, mainly due to signal drop-out. Concordance between TI and surgery in cleft localization was good (kappa=0.67); TI correctly diagnosed 6 out of 8 clefts. For cleft identification, sensitivity (13% vs 75%), specificity (96% vs 99%), PPV (10% vs 67%), and NPV (97% vs 99%) were significantly better (p<0.05) for TI compared to s3DE.</p> <p>Based on our results, in patients undergoing surgery for MVP, TI has the potential to improve the diagnostic accuracy of TTE in anatomical analysis of the MV compared to s3DE, and may thus contribute towards improved personalized presurgical planning.</p> <p> </p>
Magnetic two-dimensional material dataset
Open the record for dataset details and reuse information.
Elucidating the mechanisms underlying left ventricular function recovery in patients with ischemic heart failure undergoing surgical remodeling: A 3-dimensional ultrasound analysis.
<p>Dataset from Castelvecchio S, Frigelli M, Sturla F, Milani V, Pappalardo OA, Citarella M, Menicanti L, Votta E. Elucidating the mechanisms underlying left ventricular function recovery in patients with ischemic heart failure undergoing surgical remodeling: A 3-dimensional ultrasound analysis. J Thorac Cardiovasc Surg. 2021 Feb 26:S0022-5223(21)00381-0. doi: 10.1016/j.jtcvs.2021.02.067. Epub ahead of print. PMID: 33781593.</p> <p>Abstract </p> <p><strong>Objective: </strong>The study objective was to elucidate the mechanisms of left ventricle functional recovery in terms of endocardial contractility and synchronicity after surgical ventricular reconstruction.</p> <p><strong>Methods: </strong>Real-time 3-dimensional transthoracic echocardiography was performed on 20 patients with anterior left ventricle remodeling and ischemic heart failure before surgical ventricular reconstruction and at 6-month follow-up, and on 15 healthy controls matched by age and body surface area. Real-time 3-dimensional transthoracic echocardiography datasets were analyzed through TomTec software (4D LV-Analysis; TomTec Imaging Systems GmbH, Unterschleissheim, Germany): Left ventricle volumes, ejection fraction, and global longitudinal strain were computed; the time-dependent endocardial surface yielded by 3-dimensional speckle-tracking echocardiography was postprocessed through in-house software to quantify local systolic minimum principal strain as a measure of fiber shortening and mechanical dispersion as a measure of fiber synchronicity.</p> <p><strong>Results: </strong>Compared with controls, patients with heart failure before surgical ventricular reconstruction showed lower ejection fraction (P < .0001) and significantly impaired mechanical dispersion (P < .0001) and minimum principal strain (P < .0001); the latter worsened progressively from left ventricle base to apex. After surgical ventricular reconstruction, global longitudinal strain improved from -6.7% to -11.3% (P < .0001); mechanical dispersion decreased in every left ventricle region (P ≤ .017) and mostly in the basal region, where computed mechanical dispersion values were comparable to physiologic values (P ≥ .046); minimum principal strain improved mostly in the basal region, changing from -16.6% to -22.3% (P = .0027).</p> <p><strong>Conclusions: </strong>At 6-month follow-up, surgical ventricular reconstruction was associated with significant recovery in global left ventricle function, improved mechanical dispersion indicating a more synchronous left ventricle contraction, and improved left ventricle fiber shortening mostly in the basal region, suggesting the major role of the remote myocardium in enhancing left ventricle functional recovery.</p>
Data for the manuscript "Classification of Stream, Hyperconcentrated, and Debris Flow Using Dimensional Analysis and Machine Learning"
<p>The excel file contains hydrological and sediment data. Also included are dimensional analysis data in our dataset.<br> The rar file contains the codes and data for SVM classification work.</p>
Dataset related to article "High-dimensional single cell analysis identifies stem-like cytotoxic CD8+ T cells infiltrating human tumors"
<p>This record contains raw data related to article "High-dimensional single cell analysis identifies stem-like cytotoxic CD8+ T cells infiltrating human tumors"</p> <p>CD8<sup>+</sup> T cells infiltrating tumors are largely dysfunctional, but whether a subset maintains superior functionality remains ill defined. By high-dimensional single cell analysis of millions of CD8<sup>+</sup> T cells from 53 individuals with lung cancer, we defined those subsets that are enriched in tumors compared with cancer-free tissues and blood. Besides exhausted and activated cells, we identified CXCR5<sup>+</sup> TIM-3<sup>-</sup> CD8<sup>+</sup> T cells with a partial exhausted phenotype, while retaining gene networks responsible for stem-like plasticity and cytotoxicity, as revealed by single cell sequencing of the whole transcriptome. Ex vivo, CXCR5<sup>+</sup> TIM-3<sup>-</sup> CD8<sup>+</sup> T cells displayed enhanced self-renewal and multipotency compared with more differentiated subsets and were largely polyfunctional. Analysis of inhibitory and costimulatory receptors revealed PD-1, TIGIT, and CD27 as possible targets of immunotherapy. We thus demonstrate a hierarchy of differentiation in the context of T cell exhaustion in human cancer similar to that of chronically infected mice, which is further shown to disappear with disease progression.</p>
A THREE-DIMENSIONAL (3D) COMPARATIVE ASSESSMENT OF THE DENTOSKELETAL EFFECTS OF CLEAR ALIGNERS VERSUS TEMPORARY ANCHORAGE DEVICE (TAD)-ASSISTED POSTERIOR INTRUSION IN ADOLESCENTS WITH ANTERIOR OPEN BITE. A SINGLE-CENTER, RETROSPECTIVE, COHORT STUDY.
<p>Anterior Open Bite (AOB) is a malocclusion characterised by the absence of overbite and contact between upper and lower incisors in centric occlusion. AOB prevalence worldwide has been reported to be approximately 5-6%, with a higher occurrence in certain ethnic groups. Management of AOB malocclusion in growing patients varies and the armamentarium of conventional clinical practice includes habit cessation devices such as tongue crib and spurs, activators, and removable or fixed posterior bite blocks aimed at controlling tongue posture and posterior eruption respectively. Alternative methods for the correction of AOB include intrusion of posterior teeth using skeletal anchorage through temporary anchorage devices (TADs) and clear aligner therapy (CAT). The current literature indicates that TAD assisted molar intrusion induces open bite closure through mandibular counter-clockwise rotation of up to 3.9<sup> </sup>degrees. It has been suggested that clear aligners produce changes in the vertical dimension through a bite-block effect, facilitating counter-clockwise autorotation of the mandible and improving skeletal open bite. A recent study on adult patients concluded that reductions in AOB with CAT are largely a result of 1mm maxillary and mandibular incisor extrusion with some increases also noted in their lingual inclination, particularly in the maxilla. Most studies to date rely on two-dimensional (2D) cephalometric analyses of AOB treatment in both non-growing and adult patients. The aim of the present study was to compare the skeletal and dentoalveolar effects of CAT versus TAD-assisted intrusion of maxillary posterior teeth in growing adolescents with AOB using three-dimensional (3D) imaging. The null hypothesis assumed that there were no statistically significant differences in skeletal and dentoalveolar changes between the two groups. Additionally, the occlusion of the CAT group was assessed with the American Board of Orthodontists Objective Grading System (ABO-OGS) in order to provide evidence of the quality of final occlusion achieved with CAT.</p>
Dataset for "Classification of Stream, Hyperconcentrated, and Debris Flow Using Dimensional Analysis and Machine Learning"
<p>Du J. et al., (2022). Dataset for "Classification of Stream, Hyperconcentrated, and Debris Flow Using Dimensional Analysis and Machine Learning", Water Resources Research</p> <p>Table S1: Hydrologic Paramteres and Dimensionless Numbers of Debris Flows</p> <p>Table S2: Hydrologic Paramteres and Dimensionless Numbers of Hyperconcentrated Flows</p> <p>Table S3: Hydrologic Paramteres and Dimensionless Numbers of Stream Flows</p> <p>Table S4: Hydrologic Paramteres and Dimensionless Numbers of Lahars</p>
Comparison of Four-Dimensional Magnetic Resonance Imaging Analysis of Left Ventricular Fluid Dynamics and Energetics in Ischemic and Restrictive Cardiomyopathies.
<p>Riva A, Sturla F, Pica S, Camporeale A, Tondi L, Saitta S, Caimi A, Giese D, Palladini G, Milani P, Castelvecchio S, Menicanti L, Redaelli A, Lombardi M, Votta E. Comparison of Four-Dimensional Magnetic Resonance Imaging Analysis of Left Ventricular Fluid Dynamics and Energetics in Ischemic and Restrictive Cardiomyopathies. J Magn Reson Imaging. 2022 Oct;56(4):1157-1170. doi: 10.1002/jmri.28076. Epub 2022 Jan 24. PMID: 35075711; PMCID: PMC9541919.</p> <p>Abstract</p> <p><strong>Background: </strong>Time-resolved three-directional velocity-encoded (4D flow) magnetic resonance imaging (MRI) enables the quantification of left ventricular (LV) intracavitary fluid dynamics and energetics, providing mechanistic insight into LV dysfunctions. Before becoming a support to diagnosis and patient stratification, this analysis should prove capable of discriminating between clearly different LV derangements.</p> <p><strong>Purpose: </strong>To investigate the potential of 4D flow in identifying fluid dynamic and energetics derangements in ischemic and restrictive LV cardiomyopathies.</p> <p><strong>Study type: </strong>Prospective observational study.</p> <p><strong>Population: </strong>Ten patients with post-ischemic cardiomyopathy (ICM), 10 patients with cardiac light-chain cardiac amyloidosis (AL-CA), and 10 healthy controls were included.</p> <p><strong>Field strength/sequence: </strong>1.5 T/balanced steady-state free precession cine and 4D flow sequences.</p> <p><strong>Assessment: </strong>Flow was divided into four components: direct flow (DF), retained inflow, delayed ejection flow, and residual volume (RV). Demographics, LV morphology, flow components, global and regional energetics (volume-normalized kinetic energy [KE<sub>V</sub> ] and viscous energy loss [EL<sub>V</sub> ]), and pressure-derived hemodynamic force (HDF) were compared between the three groups.</p> <p><strong>Statistical tests: </strong>Intergroup differences in flow components were tested by one-way analysis of variance (ANOVA); differences in energetic variables and peak HDF were tested by two-way ANOVA. A P-value of <0.05 was considered significant.</p> <p><strong>Results: </strong>ICM patients exhibited the following statistically significant alterations vs. controls: reduced KE<sub>V</sub> , mostly in the basal region, in systole (-44%) and in diastole (-37%); altered flow components, with reduced DF (-33%) and increased RV (+26%); and reduced basal-apical HDF component on average by 63% at peak systole. AL-CA patients exhibited the following alterations vs. controls: significantly reduced KE<sub>V</sub> at the E-wave peak in the basal segment (-34%); albeit nonstatistically significant, increased peaks and altered time-course of the HDF basal-apical component in diastole and slightly reduced HDF components in systole.</p> <p><strong>Data conclusion: </strong>The analysis of multiple 4D flow-derived parameters highlighted fluid dynamic alterations associated with systolic and diastolic dysfunctions in ICM and AL-CA patients, respectively.</p>
In vitro four-dimensional flow magnetic resonance analysis of the effect of pericardial valve design on aortic flow
<p>Tasca G, Sturla F, Jaworek M, Giese D, Menicanti L, Vismara R, Lombardi M, Redaelli A. <em>In vitro</em> four-dimensional flow magnetic resonance analysis of the effect of pericardial valve design on aortic flow. J Med Eng Technol. 2022 Apr;46(3):209-219. doi: 10.1080/03091902.2022.2026505. Epub 2022 Jan 21. PMID: 35060819.</p> <p>Abstract</p> <p>We investigated the effect of the design of bioprosthetic pericardial valves on the downstream fluid flow pattern through four-dimensional flow magnetic resonance imaging (4D Flow). A dedicated <em>in vitro</em> test bench, including a paradigmatic aortic root phantom, was used to compare, under steady flow conditions, three commercially used pericardial bioprostheses (Trifecta<sup>TM</sup>, Carpentier-Edwards PERIMOUNT Magna, Crown PRT®), selecting the two smallest and comparable valve sizes. In-house 4D Flow post-processing provided the downstream flow pattern of velocity, the velocity profile at vena contracta, its effective orifice area (EOA) and the corresponding hydraulic diameter (D<sub>H</sub>). Trifecta reported the lowest peak of velocity for both the tested sizes, with vena contracta position being the most proximal to the free margin of leaflets. Conversely, in both Crown and Magna, jet flow continued to increase its downstream velocity, resulting in a farther position of vena contracta. EOA shape was trilobal for Magna, triangular for Crown and circular for Trifecta, the last one maximising EOA. The percentage of nominal luminal area effectively exploited by the flow was largely above 80% in Trifecta, below 75% in Crown and below 70% in Magna. Hence, the design of pericardial bioprostheses directly impacts on the downstream flow field pattern and its fluid dynamic performance.</p>
Three-dimensional micro-CT images of UV-frozen flow fronts recorded at different flow regimes
<p>Segmented micro-CT images of flow fronts produced by UV-flow freezing. Front morphologies correspond to capilary-dominated, equilibrated and viscous-dominated flow regimes.</p>
A histone hyperacetylation pulse induces cellular memory of gene expression and 3-dimensional genome folding [ATAC-seq]
GEO Series GSE280486. Mus musculus. 10 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Three Dimensional (3D) conformational change of chromatin organization upon RA mediated Hox PG5 induction
GEO Series GSE72709. Mus musculus. 12 samples. Type: Other.
MMS 3 Electric Double Probe (EDP) Axial Double Probe, Spin Plane Double Probe (ADP-SDP) Three-Dimensional HMFE Electric Field, Level 2 (L2), Burst Mode, 0.01525878906 ms Data
Electric Double Probe, Three-Dimensional HMFE Electric Field, Level 2, Burst Mode, Level 1B AC Electric Field Data
MMS 4 Electric Double Probe (EDP) Axial Double Probe, Spin Plane Double Probe (ADP-SDP) Three-Dimensional HMFE Electric Field, Level 2 (L2), Burst Mode, 0.01525878906 ms Data
Electric Double Probe, Three-Dimensional HMFE Electric Field, Level 2, Burst Mode, Level 1B AC Electric Field Data
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.