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Dataset results
17 results for “relative impact potential”
Dataset related to the article "Binary classification of copy number alteration profiles in liquid biopsy with potential clinical impact in advanced NSCLC"
<p>This record contains original data used in the article "Binary classification of copy number alteration profiles in liquid biopsy with potential clinical impact in advanced NSCLC" to develop a linear support vector machine (SVM) classifier to predict chromosomal instability. </p> <p>We retrospectively evaluated the results of plasma NGS analysis performed at our Institution by using the AVENIO ctDNA Expanded Kit, a panel of 77 genes, which detects the major classes of genetic alterations. Binary classification, into “stable” (SCP) or “unstable” (UCP) chromosomal profiles, was initially performed by visual inspection of individual CNV alteration profiles by two independent professionals of our group. Then we decided to implement a support vector machine (SVM) classifier to automatically classify CNV profiles as SCP or UCP, beyond operators’ experience. We considered the segmented log2 ratios (.cns) files provided by the CNV kit software and computed three features (Segments, Size, Chromosomes). An alteration (“occurrence of instability”) in the CNV profile was defined each time we found a DNA segment of any size with absolute value of the log2 copy ratio exceeding a fixed cut-off. Two different cut-off values on log2 copy ratio were examined: 0.1 and 0.2. Once the cut-off was defined, three features were considered as covariates in the SVM classifier: 1) number of altered segments (Segments), 2) total length of altered regions (Size) and 3) number of affected chromosomes (Chromosomes).</p> <p>The “dataset_0.1.txt” and “dataset_0.2.txt” files are the original data matrices obtained by considering a cut-off of 0.1 and 0.2, respectively, on the absolute value of the log2 copy ratio.</p> <p>Rows represent available samples in our study (n=177). Columns contain the following variables: anonymized sample IDs (Sample), the class, “stable” or “unstable”, as assigned by two independent professionals of our group (Class), the corresponding binary label (Label: 0 for “stable”, 1 for “unstable”), the three features used as covariates in the SVM classifier and computed as described above (Segments, Size, Chromosomes).</p> <p><br>For the detailed results of our work, please refer to the full article.</p>
Data from: Current inequality and future potential of US urban tree cover for reducing heat-related health impacts
Open the record for dataset details and reuse information.
Supplementary material 1 from: Dickey JWE, Cuthbert RN, South J, Britton JR, Caffrey J, Chang X, Crane K, Coughlan NE, Fadaei E, Farnsworth KD, Ismar-Rebitz SMH, Joyce PWS, Julius M, Laverty C, Lucy FE, MacIsaac HJ, McCard M, McGlade CLO, Reid N, Ricciardi A, Wasserman RJ, Weyl OLF, Dick JTA (2020) On the RIP: using Relative Impact Potential to assess the ecological impacts of invasive alien species. NeoBiota 55: 27-60. https://doi.org/10.3897/neobiota.55.49547
Table S1. Outline of different numerical response proxies available, guidance for their use and the advantages and disadvantages of each
Supplementary material 2 from: Dickey JWE, Cuthbert RN, Rea M, Laverty C, Crane K, South J, Briski E, Chang X, Coughlan NE, MacIsaac HJ, Ricciardi A, Riddell GE, Xu M, Dick JTA (2018) Assessing the relative potential ecological impacts and invasion risks of emerging and future invasive alien species. NeoBiota 40: 1-24. https://doi.org/10.3897/neobiota.40.28519
Table S2. Summary of the GB online survey outlining which of the four species of turtle was being sold :
Fig. 6 in Impact of potential stimulants on asiaticoside and madecassoside levels and expression of triterpenoid-related genes in axenic shoot cultures of Centella asiatica (L.) Urb
Fig. 6. Relative fold change of genes involved in the production of asiaticoside and madecassoside in C. asiatica multiple shoot cultures, after three and four weeks of a treatment with AgNO3. Abbreviation: HMGR: hydroxymethylglutaryl-CoA reductase; DXR: deoxylulosephosphate reductoisomerase; FPS: farnesyl diphosphate synthase; βAS: beta amyrin synthase; SE: squalene epoxidase; SS: squalene synthase; GT: glycosyltransferase.
Fig. 7 in Impact of potential stimulants on asiaticoside and madecassoside levels and expression of triterpenoid-related genes in axenic shoot cultures of Centella asiatica (L.) Urb
Fig. 7. Proposed biosynthetic pathway of triterpenoids in C.asiatica (Prasad et al., 2019). Abbreviation: HMGS: hydroxy methylglutaryl-CoA synthase; HMGR: hydroxymethylglutaryl-CoA reductase; MVK: mevalonate kinase; DXS: deoxylulosephosphate synthase; DXR: deoxylulosephosphate reductoisomerase; DMAPP: dimethylallyl pyrophosphate; IPP: isopentenyl pyrophosphate; GPP: geranyl pyrophosphate; FPP: farnesyl pyrophosphate; FPPS: farnesyl diphosphate synthase; βAS: beta amyrin synthase; αAS: alpha amyrin synthase; SE: squalene epoxidase; SS: squalene synthase; CYP450: cytochrome P450; GT'S: glycosyltransferase; MVA: mevalonate; MEP: methylerythritol 4-phosphate.
Fig. 5 in Impact of potential stimulants on asiaticoside and madecassoside levels and expression of triterpenoid-related genes in axenic shoot cultures of Centella asiatica (L.) Urb
Fig. 5. Madecassoside content (mg/g DW) after three and four weeks, in response to two different concentrations of each elicitor. Mean values followed by different letters under different treatments and time within similarly colored bars are significantly different from each other at p <0.05 (Duncan's multiple range tests).
Fig. 4 in Impact of potential stimulants on asiaticoside and madecassoside levels and expression of triterpenoid-related genes in axenic shoot cultures of Centella asiatica (L.) Urb
Fig. 4. Asiaticoside content (mg/g DW) after three and four weeks, in response to two different concentrations of each elicitor. Mean values followed by different letters under different treatments and time within similarly colored bars are significantly different from each other at p <0.05 (Duncan's multiple range tests).
Fig. 2. A in Impact of potential stimulants on asiaticoside and madecassoside levels and expression of triterpenoid-related genes in axenic shoot cultures of Centella asiatica (L.) Urb
Fig. 2. A) Nodal segment of C. asiatica used for culture initiation; B) Shoot induction in MS media with 1 mg/L BAP and 0.2 mg/L NAA; C) Multiple shoot cultures observed after three weeks; D) Established cultures; E) and F) Biomass cultivation and harvest.
Fig. 1 in Impact of potential stimulants on asiaticoside and madecassoside levels and expression of triterpenoid-related genes in axenic shoot cultures of Centella asiatica (L.) Urb
Fig. 1. Different growth stages showing an increase in the number of shoots in C. asiatica cultures at two weeks (A), three weeks (B), four weeks (C), and five weeks (D).
Muscle-Related Side Effects of Statins: Functional Impact, Mechanisms, and Potential Relief With Vitamin D Supplementation
ClinicalTrials.gov study NCT01493648. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Supplementary material 3 from: Dickey JWE, Cuthbert RN, Rea M, Laverty C, Crane K, South J, Briski E, Chang X, Coughlan NE, MacIsaac HJ, Ricciardi A, Riddell GE, Xu M, Dick JTA (2018) Assessing the relative potential ecological impacts and invasion risks of emerging and future invasive alien species. NeoBiota 40: 1-24. https://doi.org/10.3897/neobiota.40.28519
R Script Biplot Creation :
Supplementary material 5 from: Dickey JWE, Cuthbert RN, Rea M, Laverty C, Crane K, South J, Briski E, Chang X, Coughlan NE, MacIsaac HJ, Ricciardi A, Riddell GE, Xu M, Dick JTA (2018) Assessing the relative potential ecological impacts and invasion risks of emerging and future invasive alien species. NeoBiota 40: 1-24. https://doi.org/10.3897/neobiota.40.28519
Outlining RIP and RIR data :
Supplementary material 1 from: Dickey JWE, Cuthbert RN, Rea M, Laverty C, Crane K, South J, Briski E, Chang X, Coughlan NE, MacIsaac HJ, Ricciardi A, Riddell GE, Xu M, Dick JTA (2018) Assessing the relative potential ecological impacts and invasion risks of emerging and future invasive alien species. NeoBiota 40: 1-24. https://doi.org/10.3897/neobiota.40.28519
Table S1 The locations of the 20 pet shops surveyed across Northern Ireland :
Supplementary material 4 from: Dickey JWE, Cuthbert RN, Rea M, Laverty C, Crane K, South J, Briski E, Chang X, Coughlan NE, MacIsaac HJ, Ricciardi A, Riddell GE, Xu M, Dick JTA (2018) Assessing the relative potential ecological impacts and invasion risks of emerging and future invasive alien species. NeoBiota 40: 1-24. https://doi.org/10.3897/neobiota.40.28519
R Script Triplot Creation :
Impact of Oocytes With CLCG on ICSI Outcomes and Their Potential Relation to Pesticide Exposure
ClinicalTrials.gov study NCT03647020. IPD Sharing: NO. Countries: 0. Publications: 0.
Fig. 3 in Impact of potential stimulants on asiaticoside and madecassoside levels and expression of triterpenoid-related genes in axenic shoot cultures of Centella asiatica (L.) Urb
Fig. 3. Effects of different time intervals on biomass, asiaticoside (ASD), and madecassoside (MSD) content.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.