scholarly journals CEBS Chemical Effects in Biological Systems: a public data repository integrating study design and toxicity data with microarray and proteomics data

2007 ◽  
Vol 36 (Database) ◽  
pp. D892-D900 ◽  
Author(s):  
M. Waters ◽  
S. Stasiewicz ◽  
B. Alex Merrick ◽  
K. Tomer ◽  
P. Bushel ◽  
...  
Keyword(s):  
Study Design ◽  
Biological Systems ◽  
Data Repository ◽  
Toxicity Data ◽  
Proteomics Data ◽  
Chemical Effects ◽  
Public Data ◽  
Public Data Repository

scholarly journals Open Development and Clinical Validation of Multiple 3D-Printed Nasopharyngeal Collection Swabs: Rapid Resolution of a Critical COVID-19 Testing Bottleneck

2020 ◽  
Vol 58 (8) ◽  
Author(s):  
Cody J. Callahan ◽  
Rose Lee ◽  
Katelyn E. Zulauf ◽  
Lauren Tamburello ◽  
Kenneth P. Smith ◽  
...  
Keyword(s):  
New Technology ◽  
Rapid Development ◽  
High Sensitivity ◽  
Data Repository ◽  
Link Type ◽  
Institutional Review ◽  
Public Data ◽  
Open Development ◽  
Public Data Repository ◽  
Translational Research Program

ABSTRACT The pandemic caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused a severe international shortage of the nasopharyngeal swabs that are required for collection of optimal specimens, creating a critical bottleneck blocking clinical laboratories’ ability to perform high-sensitivity virological testing for SARS-CoV-2. To address this crisis, we designed and executed an innovative, cooperative, rapid-response translational-research program that brought together health care workers, manufacturers, and scientists to emergently develop and clinically validate new swabs for immediate mass production by 3D printing. We performed a multistep preclinical evaluation of 160 swab designs and 48 materials from 24 companies, laboratories, and individuals, and we shared results and other feedback via a public data repository (http://github.com/rarnaout/Covidswab/). We validated four prototypes through an institutional review board (IRB)-approved clinical trial that involved 276 outpatient volunteers who presented to our hospital’s drive-through testing center with symptoms suspicious for COVID-19. Each participant was swabbed with a reference swab (the control) and a prototype, and SARS-CoV-2 reverse transcriptase PCR (RT-PCR) results were compared. All prototypes displayed excellent concordance with the control (κ = 0.85 to 0.89). Cycle threshold (CT) values were not significantly different between each prototype and the control, supporting the new swabs’ noninferiority (Mann-Whitney U [MWU] test, P > 0.05). Study staff preferred one of the prototypes over the others and preferred the control swab overall. The total time elapsed between identification of the problem and validation of the first prototype was 22 days. Contact information for ordering can be found at http://printedswabs.org. Our experience holds lessons for the rapid development, validation, and deployment of new technology for this pandemic and beyond.

scholarly journals The Yeast Resource Center Public Data Repository

2004 ◽  
Vol 33 (Database issue) ◽  
pp. D378-D382 ◽  
Author(s):  
M. Riffle
Keyword(s):  
Data Repository ◽  
Resource Center ◽  
Public Data ◽  
Public Data Repository

Targeting TRIB2 expression with oral antidiabetic drugs to overcome tumour malignancy and drug-resistance

2020 ◽  
Vol 30 (Supplement_2) ◽  
Author(s):  
A Sousa-Coelho
Keyword(s):  
Drug Resistance ◽  
Cell Metabolism ◽  
Data Repository ◽  
Cancer Therapies ◽  
Oral Antidiabetic ◽  
Advanced Search ◽  
Public Data ◽  
Obese Rats ◽  
Public Data Repository ◽  
Marrow Mesenchymal Stem Cells

Abstract Introduction TRIB2 is one of three members of the Tribbles family, which interacts and activates the protein kinase AKT, associated to the suppression of FOXO in melanoma, which mediate insulin action on key functions involved in cell metabolism and growth. TRIB2, recently identified as a druggable protein, has been pointed as a cause of resistance to cancer therapies, and so, modulating its expression might be a suitable strategy to overcome tumour malignancy and drug-resistance. Members from the thiazolidinediones (TZDs) family of oral antidiabetic insulin-sensitizing drugs, available in clinical settings, have been previously reported to be effective in melanoma, however there are still controversial results. Objectives Identifying new therapeutic strategies to overcome therapeutic resistance in TRIB2-positive cancers. Methodology Analyses of TRIB2’s expression levels in different samples in response to TZDs, using GEO profiles available at public data repository with the following advanced search terms: TRIB2 [gene] AND Rosiglitazone OR Pioglitazone OR Troglitazone. Results From a total of 15 independent studies, it was found that TRIB2 was up-regulated in Rosi-treated human dendritic cells, skeletal muscle from obese PCOS women treated with Pioglitazone, and liver from obese rats treated either with Pio or Troglitazone. By contrast, TRIB2 was down-regulated in white adipose tissue (WAT) from obese rats treated either with Pio or Troglitazone, in Rosi-treated mouse stromal vascular cells from inguinal WAT, and in PPARγ–overexpressed marrow mesenchymal stem cells treated with Rosiglitazone. Conclusion Although TRIB2 expression was modulated by the different TZDs in certain samples, depending on the cellular context, it was either up- or down-regulated. While further studies are needed, especially in a malignancy environment, TZDs treatment of TRIB2-positive cancer does not seem to be a valuable therapeutic strategy and might be even counter-productive.

scholarly journals K-Nearest Neighbor Based URL Identification Model for Phishing Attack Detection

2021 ◽  
Vol 1 (2) ◽  
pp. 18-21
Author(s):  
Tsehay Admassu Assegie*
Keyword(s):  
Nearest Neighbor ◽  
Attack Detection ◽  
Experimental Result ◽  
Data Repository ◽  
K Nearest Neighbor ◽  
K Nearest Neighbors ◽  
K Value ◽  
Proposed Model ◽  
Public Data ◽  
Public Data Repository

Phishing causes many problems in business industry. The electronic commerce and electronic banking such as mobile banking involves a number of online transaction. In such online transactions, we have to discriminate features related to legitimate and phishing websites in order to ensure security of the online transaction. In this study, we have collected data form phish tank public data repository and proposed K-Nearest Neighbors (KNN) based model for phishing attack detection. The proposed model detects phishing attack through URL classification. The performance of the proposed model is tested empirically and result is analyzed. Experimental result on test set reveals that the model is efficient on phishing attack detection. Furthermore, the K value that gives better accuracy is determined to achieve better performance on phishing attack detection. Overall, the average accuracy of the proposed model is 85.08%.

scholarly journals K-Nearest Neighbor Based URL Identification Model for Phishing Attack Detection

2021 ◽  
pp. 18-21
Author(s):  
Tsehay Admassu Assegie ◽  
Keyword(s):  
Nearest Neighbor ◽  
Attack Detection ◽  
Experimental Result ◽  
Data Repository ◽  
K Nearest Neighbor ◽  
K Nearest Neighbors ◽  
K Value ◽  
Proposed Model ◽  
Public Data ◽  
Public Data Repository

Phishing causes many problems in business industry. The electronic commerce and electronic banking such as mobile banking involves a number of online transaction. In such online transactions, we have to discriminate features related to legitimate and phishing websites in order to ensure security of the online transaction. In this study, we have collected data form phish tank public data repository and proposed K-Nearest Neighbors (KNN) based model for phishing attack detection. The proposed model detects phishing attack through URL classification. The performance of the proposed model is tested empirically and result is analyzed. Experimental result on test set reveals that the model is efficient on phishing attack detection. Furthermore, the K value that gives better accuracy is determined to achieve better performance on phishing attack detection. Overall, the average accuracy of the proposed model is 85.08%.

scholarly journals Wearable technologies for developing sleep and circadian biomarkers: a summary of workshop discussions

SLEEP ◽  
2019 ◽  
Vol 43 (2) ◽  
Author(s):  
Christopher M Depner ◽  
Philip C Cheng ◽  
Jaime K Devine ◽  
Seema Khosla ◽  
Massimiliano de Zambotti ◽  
...  
Keyword(s):  
Validation Studies ◽  
Large Scale ◽  
Wearable Devices ◽  
Data Repository ◽  
Wearable Technologies ◽  
Public Data ◽  
Public Health Messages ◽  
Public Data Repository ◽  
Circadian Physiology ◽  
Current Science

Abstract The “International Biomarkers Workshop on Wearables in Sleep and Circadian Science” was held at the 2018 SLEEP Meeting of the Associated Professional Sleep Societies. The workshop brought together experts in consumer sleep technologies and medical devices, sleep and circadian physiology, clinical translational research, and clinical practice. The goals of the workshop were: (1) characterize the term “wearable” for use in sleep and circadian science and identify relevant sleep and circadian metrics for wearables to measure; (2) assess the current use of wearables in sleep and circadian science; (3) identify current barriers for applying wearables to sleep and circadian science; and (4) identify goals and opportunities for wearables to advance sleep and circadian science. For the purposes of biomarker development in the sleep and circadian fields, the workshop included the terms “wearables,” “nearables,” and “ingestibles.” Given the state of the current science and technology, the limited validation of wearable devices against gold standard measurements is the primary factor limiting large-scale use of wearable technologies for sleep and circadian research. As such, the workshop committee proposed a set of best practices for validation studies and guidelines regarding how to choose a wearable device for research and clinical use. To complement validation studies, the workshop committee recommends the development of a public data repository for wearable data. Finally, sleep and circadian scientists must actively engage in the development and use of wearable devices to maintain the rigor of scientific findings and public health messages based on wearable technology.

scholarly journals WebArrayDB: cross-platform microarray data analysis and public data repository

2009 ◽  
Vol 25 (18) ◽  
pp. 2425-2429 ◽  
Author(s):  
Xiao-Qin Xia ◽  
Michael McClelland ◽  
Steffen Porwollik ◽  
Wenzhi Song ◽  
Xianling Cong ◽  
...  
Keyword(s):  
Data Analysis ◽  
Microarray Data ◽  
Microarray Data Analysis ◽  
Data Repository ◽  
Public Data ◽  
Public Data Repository ◽  
Cross Platform
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