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2020-03-20
CSV file with coded results of a literature review on "predatory publishing" conducted in September 2019.
Search Results
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2021-09-17
DOTS (Data on Terrorist Suspects) provides the names of individuals who have appeared in previous chronologies of international terrorism, and includes individuals who have been named in open sources as somehow involved in terrorist attacks or organizations mentioned in ITERATE.
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2021-09-17
Autophagy is a cellular stress response pathway that controls cell growth and maintains homeostasis. Dysregulation of autophagy leads to several cytopathic disorders, such as cancer, inflammatory bowel disorders, and neurodegeneration. Cellular stress, such as nutrient starvation or infection, triggers the autophagic cascade by activating the ATG16L1/5-12 protein complex, which delivers cellular compartments to lysosomes for degradation. Very little is known about where ATG16L1 is located under nutrient rich conditions and about the first steps of its activation, prior to binding to nascent autophagosome. We discovered three post-translational modifications (PTM’s) of ATG16L1, S268A, S269/287A, and T281A, that occur under nutrient rich conditions and are lost upon starvation. We also discovered under basal conditions ATG16L1 is localized to the cytoskeleton through interaction with SPEC1L, and that ATG16L1/SPEC1L complex dissociates upon activation. We hypothesize that the stress-sensitive PTM’s mediate the complex’s stability; during stress, they dissociate from the ATG16L1/SPEC1L complex leading to the activation of the complex. My objective is to create phospho-mimetic and phospho-dead mutations of ATG16L1 to detect if these phosphorylation events regulate ATG16L1 inactivation at the cytoskeleton. Mutations were inserted into the genome of virus vectors by Site-Directed Mutagenesis, based on KOD Xtreme Hot Start and Pfu Turbo DNA Polymerase enzymes protocols. Salmonella bacteria were infected with the vectors to evaluate the mutations through direct-sequencing. Mutations will be introduced in vitro into mammalian cells, and the results will be analysed by Western Blotting and Immunoprecipitation.
Abstract Submission for the Undergraduate Research Opportunity Program (UROP). Research conducted under the supervision of Dr. Ryan Russell.
Poster associated with the Abstract is attached.
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2021-09-20
The ITERATE project is an attempt to quantify data on the characteristics of transnational terrorist groups, their activities which have international impact, and the environment in which they operate. ITERATE 3 and 4 update the coverage of terrorist incidents first reported in ITERATE 1 and 2, which can be obtained from the Inter- University Consortium for Political and Social Research, Box 1248, Ann Arbor, Michigan 48106. ITERATE 3 and 4 are compatible with the coding categories used in its predecessors, but includes new variables.
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These files include more detailed information on the characteristics and fates of the hostages.
N/A
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2017-07-04
This dataset contains qualitative information from the Elsevier website regarding copyright for the journals listed on the Elsevier APC price list as open access that do not charge APCs.
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2021-03-26
This data contains a semi-custom tabulations of the 2016 Census, which includes Visible Minority (15), Immigrant Status and Period of Immigration (11), Age (12),
Generation Status (4) and Sex (3) for the Population in Private Households of Canada, Census Metropolitan Areas, Census Agglomerations and Census Tracts,
This dataset is in Beyond 20/20 (.ivt) format. The Beyond 20/20 browser is required in order to visualize the data. This software can be freely downloaded from the Statistics Canada website: https://www.statcan.gc.ca/eng/public/beyond20-20 (Windows only). If you encounter problems, don't hesitate to contact the dataset owner (top right of this page).
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Cet ensemble de données est en format Beyond 20/20 (.ivt). Le navigateur Beyond 20/20 est nécessaire pour visualiser les données. Ce logiciel peut être téléchargé gratuitement sur le site web de Statistique Canada : https://www.statcan.gc.ca/fra/publique/beyond20-20 (Windows uniquement). Si vous éprouvez des difficultés, n'hésitez pas à communiquer avec le propriétaire des données (haut à droite de cette page).
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2021-09-08
The Researcher Datasets from the PRS Group provide annual and monthly weighted average risks across countries from 1984 on a wealth of Political, Economic and Financial risk topics for 140 monitored countries. This monthly Political Risk index starts in January 1984 and covers the 12 general components for Political Risk. This is a monthly index.
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2021-09-15
The ITERATE project is an attempt to quantify data on the characteristics of transnational terrorist groups, their activities which have international impact, and the environment in which they operate. ITERATE 3 and 4 update the coverage of terrorist incidents first reported in ITERATE 1 and 2, which can be obtained from the Inter- University Consortium for Political and Social Research, Box 1248, Ann Arbor, Michigan 48106. ITERATE 3 and 4 are compatible with the coding categories used in its predecessors, but includes new variables.
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2022-01-19
This dataverse includes files and information to make a 3DPrintable surrogate lower limb (i.e., foot, ankle, shank). This device was developed for mechanical load testing of ankle-foot orthoses (AFO) but can have other uses since the device moves passively like a typical human limb.
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2021-09-20
The Researcher Datasets from the PRS Group provide annual and monthly weighted average risks across countries from 1984 on a wealth of Political, Economic and Financial risk topics for 140 monitored countries. The components of the ICRG Financial Risk Rating are Foreign Debt as a % of GDP, Exchange Rate Stability, Debt Service as a % of Exports of Goods & Services (XGS), Current Account as a % of Exports of Goods and Services, and International Liquidity.
N/A
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2021-09-17
Independent research project submitted to multiple journals and presented at multiple conferences. Planning to develop the project further into a publication.
Full Abstract:
Introduction: Triple-negative breast cancer (TNBC) is a highly metastatic type of breast cancer and one of the largest contributors to cancer mortality in women. Unlike other breast cancers, TNBC lacks any approved therapeutic targets. Scientists are rigorously attempting to decipher molecular pathways enriched in TNBC and to design clinically applicable therapeutics. Many TNBC drugs that successfully produce general antitumor effects in vitro fail to display significant long-lasting positive effects at the clinical level. This is in part because they do not effectively suppress the growth of cancer stem cells (CSCs), which have increased ability to evolve into metastatic tumors and are associated with enrichment of immunosuppressive pathways. Moreover, it has been shown that in TNBC, dormant CSCs are able to change their metabolic signature to escape the toxic effects of these drugs; these modified metabolic signatures are shown to be causally associated with increased metastasis. Therefore, a successful, clinically-applicable therapy must have the ability to selectively inhibit CSC growth, the metastatic metabolic signature, and pathways involved in immunosuppression.
Objective: This study will evaluate the potential of four recently proposed TNBC treatments—which all successfully reduced tumor viability in vitro and/or in vivo—to inhibit genes involved in CSC survival, metastatic metabolic signature, and tumor immunosuppression.
Methods: TNBC cell lines and/or patient-derived xenografts were treated with four different treatments: DCC-2036, 9Gy proton irradiation, miR302b+cisplatin combination, and DFX+doxorubicin combination. Genome-wide mRNA profiling (via either RNA-seq or microarray) was performed on control and treated groups. Data was obtained from publicly-deposited NCBI GEO datasets. We assessed the differential expression of over 40 genes associated with CSC growth, metastatic metabolic modifications, and immunosuppression in TNBC tumors. Limma statistical analysis was performed. GSEA was also used to complement results from individual gene expression analysis.
Results: DCC-2036 treatment significantly induced the expression of CSC TNBC biomarkers—such as ALDH2, CD44, CCR5, and SNAI1—and genes associated with TNBC metastatic metabolomic signature—such as PPARGC1A. DCC-2036 showed inconsistent effects on the expression of immunosuppressive markers. 9Gy proton irradiation has mixed effects on the expression of our candidate genes, yet mostly induced the expression of stemness, metastatic, and immunosuppressive markers. miR302b+cisplatin and DFX+doxorubicin both failed to inhibit the candidate genes, yet without significantly inducing their expression. GSEA analysis confirmed the results obtained for all four treatments.
Conclusions: Observing cancer rebound in TNBC patients after treatment with traditional cancer drugs is common and often happens when treatments fail to inhibit CSC growth, metabolic pathways associated with metastasis, and oncogenic immunosuppressive pathways. Our analysis shows that all four treatments failed to significantly impact the expression of protein pathways associated with increased metastasis and immunosuppression. It is worth noting that the researchers did report a decrease in tumor viability due to treatment of their experimental models with all four treatments. However, these findings correspond to the viability of the whole cell culture or tumor, not the viability of specifically the CSCs; in TNBC, CSCs make up only a small proportion of the total mass or the tumor, so the reported antiproliferative effects of the treatments do not necessarily suggest the treatment has effectively targeted the CSC population. Therefore, we hypothesize that these non-targeted therapies will likely not show positive effects in clinical studies. Furthermore, none of the researchers performed any assays evaluating CSC growth—such as CSC-labelled flow cytometry—or metastasis—such as secondary tumor transplantation. Therefore, we encourage the researchers to perform more rigorous assays to evaluate the translatable potential of their treatments. Finally, the outline of this study provides a useful rationale for future studies to evaluate emerging TNBC therapies and serves as a motivation for further in-silico research focus.
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2022-05-18
ToTA is a full text corpus of 448 international trade agreements notified to the World Trade Organization (WTO) by 2016 and two texts for Trans-Pacific Partnership agreement (in English and Spanish). The corpus was created based on the WTO Regional Trade Agreements Information System data in late 2016/early 2017.
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2019-11-19
Data from a longitudinal study on open access article processing charges (2010 - 2019). Available in csv or excel format.
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2021-09-18
Preface: The incidence of Alzheimer’s disease has been continuously increasing over the past two decades. This has significant implications to the quality of life of many individuals and their families, and also places a large financial burden on the healthcare system. The tau protein is unanimously one of the hallmark proteins implicated in Alzheimer’s disease. The function of tau in the neurons is to stabilize the structure of microtubules by binding along the full-length of the tubules. However, in AD, tau proteins on the microtubule are hyperphosphorylated, causing them to dissociate from the microtubule. As a result, microtubules fall apart, destabilizing the cytoskeleton, and eventually leading to the collapse and death of the affected neuron. In addition, the insoluble, dissociated tau proteins tend to aggregate with one another in the cytoplasm, leading to the formation of toxic structures known as neurofibrillary tangles (NFT). Neuronal collapse and NFT formation are two potent factors that cause neurodegeneration in AD. Therefore, because of tau’s critical role in underlying AD—as well as other neurodegenerative diseases commonly grouped as tauopathies—researchers along the past two decades have rigorously developed and tested a wide array of tau-targeted therapies. This review will outline the three therapeutic strategies scientists have established and will summarize the most noteworthy clinical trials for each of these strategies.
Review article written as part of requirements for the TMM program.
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2020-11-19
Stable isotopes and sterols/stanols in bat guano from Belize and Jamaica
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2020-09-30
Quarterly high-level statistical data for open access content from 2004 - Sept. 30, 2020
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2017-03-07
Abstract from accompanying documentation article:
This article documents Open access article processing charges (OA APC) Main 2016 available for download from the OA APC dataverse, an update and expansion of the preliminary 2015 dataset described in Data [1]. This dataset was gathered as part of Sustaining the Knowledge Commons (SKC), a research program funded by Canada’s Social Sciences and Humanities Research Council. The overall goal of SKC is to advance our collective knowledge about how to transition scholarly publishing from a system dependent on subscriptions and purchase to one that is fully open access. The OA APC Main 2016 dataset was developed as one of the lines of research of SKC, a longitudinal study of the minority (about a third) of the fully open access journals that use this business model. Data gathering and analyses will continue on an ongoing basis and will be published annually. We encourage others to share their data as well. In order to merge datasets, note that the two most critical elements for matching data and merging datasets are the journal title and ISSN.
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2015-11
One of the lines of research of Sustaining the Knowledge Commons (SKC) is a longitudinal study of the minority (about a third) of the fully open access journals that use this business model. The original idea was to gather data during an annual two-week census period. The volume of data and growth in this area makes this an impractical goal. For this reason, we are posting this preliminary dataset in case it might be helpful to others working in this area. Future data gathering and analysis will be conducted on an ongoing basis. Major sources of data for this dataset include: • the Directory of Open Access Journals (DOAJ) downloadable metadata; the base set is from May 2014, with some additional data from the 2015 dataset • data on publisher article processing charges and related information gathered from publisher websites by the SKC team in 2015, 2014 (Morris
on, Salhab, Calvé-Genest & Horava, 2015) and a 2013 pilot • DOAJ article content data screen scraped from DOAJ (caution; this data can be quite misleading due to limitations with article-level metadata) • Subject analysis based on DOAJ subject metadata in 2014 for selected journals • Data on APCs gathered in 2010 by Solomon and Björk (supplied by the authors). Note that Solomon and Björk use a different method of calculating APC so the numbers are not directly comparable. • Note that this full d
ataset includes some working columns which are meaningful only by means of explaining very specific calculations which are not necessarily evident in the dataset per se. Details below. Significant limitation: • This dataset does not include new journals added to DOAJ in 2015. A recent publisher size analysis indicates some significant changes. For example, DeGruyter, not listed in the 2014 survey, is now the third largest DOAJ publisher with over 200 titles. Elsevier is now the 7th largest DOAJ publisher. In both cases, gathering data from the publisher websites will be time-consuming as it is necessary to conduct individual title look-up. • Some OA APC data for newly added journals was gathered in May 2015 but has not yet been added to this dataset. One of the reasons for gathering this data is a comparison of the DOAJ "one price listed" approach with potentially richer data on the publisher's own website. For full details see the documentation.
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2015-05-29
Minimum distance the jay would approach an observer (SEW= Shannon Whelan, CAG= Catherine Geoffrey) during fall of 2014.
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2019-04-08
Full data March 31, 2019
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