Gene Wiki and Mark2Cure update for BD2KBenjamin Good
An introduction to the Gene Wiki project with an emphasis on the use of the new WikiData project. Also describes mark2cure, a citizen science initiative oriented on biomedical text mining.
Gene Wiki and Mark2Cure update for BD2KBenjamin Good
An introduction to the Gene Wiki project with an emphasis on the use of the new WikiData project. Also describes mark2cure, a citizen science initiative oriented on biomedical text mining.
This is the slide eck that we used when we raised $1.2 million from investors for the angel round of IMSafer, back in 2006. The original company name was Collabarent.
Microtask crowdsourcing for disease mention annotation in PubMed abstractsBenjamin Good
Microtask crowdsourcing for disease mention annotation in PubMed abstracts
Benjamin M. Good, Max Nanis, Andrew I. Su
Identifying concepts and relationships in biomedical text enables knowledge to be applied in computational analyses that would otherwise be impossible. As a result, many biological natural language processing (BioNLP) projects attempt to address this challenge. However, the state of the art in BioNLP still leaves much room for improvement in terms of precision, recall and the complexity of knowledge structures that can be extracted automatically. Expert curators are vital to the process of knowledge extraction but are always in short supply. Recent studies have shown that workers on microtasking platforms such as Amazon’s Mechanical Turk (AMT) can, in aggregate, generate high-quality annotations of biomedical text.
Here, we investigated the use of the AMT in capturing disease mentions in Pubmed abstracts. We used the recently published NCBI Disease corpus as a gold standard for refining and benchmarking the crowdsourcing protocol. After merging the responses from 5 AMT workers per abstract with a simple voting scheme, we were able to achieve a maximum f measure of 0.815 (precision 0.823, recall 0.807) over 593 abstracts as compared to the NCBI annotations on the same abstracts. Comparisons were based on exact matches to annotation spans. The results can also be tuned to optimize for precision (max = 0.98 when recall = 0.23) or recall (max = 0.89 when precision = 0.45). It took 7 days and cost $192.90 to complete all 593 abstracts considered here (at $.06/abstract with 50 additional abstracts used for spam detection).
This experiment demonstrated that microtask-based crowdsourcing can be applied to the disease mention recognition problem in the text of biomedical research articles. The f-measure of 0.815 indicates that there is room for improvement in the crowdsourcing protocol but that, overall, AMT workers are clearly capable of performing this annotation task.
This presentation describes two modes of web-based knowledge acquisition in the domain of bioinformatics. "Pull" models such as social tagging systems that engage passive altruism and "push" models such as the Mechanical Turk that actively guide and incentivise the knowledge acquisition process.
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Putting the SPARK into Virtual Training.pptxCynthia Clay
This 60-minute webinar, sponsored by Adobe, was delivered for the Training Mag Network. It explored the five elements of SPARK: Storytelling, Purpose, Action, Relationships, and Kudos. Knowing how to tell a well-structured story is key to building long-term memory. Stating a clear purpose that doesn't take away from the discovery learning process is critical. Ensuring that people move from theory to practical application is imperative. Creating strong social learning is the key to commitment and engagement. Validating and affirming participants' comments is the way to create a positive learning environment.
This is the slide eck that we used when we raised $1.2 million from investors for the angel round of IMSafer, back in 2006. The original company name was Collabarent.
Microtask crowdsourcing for disease mention annotation in PubMed abstractsBenjamin Good
Microtask crowdsourcing for disease mention annotation in PubMed abstracts
Benjamin M. Good, Max Nanis, Andrew I. Su
Identifying concepts and relationships in biomedical text enables knowledge to be applied in computational analyses that would otherwise be impossible. As a result, many biological natural language processing (BioNLP) projects attempt to address this challenge. However, the state of the art in BioNLP still leaves much room for improvement in terms of precision, recall and the complexity of knowledge structures that can be extracted automatically. Expert curators are vital to the process of knowledge extraction but are always in short supply. Recent studies have shown that workers on microtasking platforms such as Amazon’s Mechanical Turk (AMT) can, in aggregate, generate high-quality annotations of biomedical text.
Here, we investigated the use of the AMT in capturing disease mentions in Pubmed abstracts. We used the recently published NCBI Disease corpus as a gold standard for refining and benchmarking the crowdsourcing protocol. After merging the responses from 5 AMT workers per abstract with a simple voting scheme, we were able to achieve a maximum f measure of 0.815 (precision 0.823, recall 0.807) over 593 abstracts as compared to the NCBI annotations on the same abstracts. Comparisons were based on exact matches to annotation spans. The results can also be tuned to optimize for precision (max = 0.98 when recall = 0.23) or recall (max = 0.89 when precision = 0.45). It took 7 days and cost $192.90 to complete all 593 abstracts considered here (at $.06/abstract with 50 additional abstracts used for spam detection).
This experiment demonstrated that microtask-based crowdsourcing can be applied to the disease mention recognition problem in the text of biomedical research articles. The f-measure of 0.815 indicates that there is room for improvement in the crowdsourcing protocol but that, overall, AMT workers are clearly capable of performing this annotation task.
This presentation describes two modes of web-based knowledge acquisition in the domain of bioinformatics. "Pull" models such as social tagging systems that engage passive altruism and "push" models such as the Mechanical Turk that actively guide and incentivise the knowledge acquisition process.
Premium MEAN Stack Development Solutions for Modern BusinessesSynapseIndia
Stay ahead of the curve with our premium MEAN Stack Development Solutions. Our expert developers utilize MongoDB, Express.js, AngularJS, and Node.js to create modern and responsive web applications. Trust us for cutting-edge solutions that drive your business growth and success.
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Affordable Stationery Printing Services in Jaipur | Navpack n PrintNavpack & Print
Looking for professional printing services in Jaipur? Navpack n Print offers high-quality and affordable stationery printing for all your business needs. Stand out with custom stationery designs and fast turnaround times. Contact us today for a quote!
Putting the SPARK into Virtual Training.pptxCynthia Clay
This 60-minute webinar, sponsored by Adobe, was delivered for the Training Mag Network. It explored the five elements of SPARK: Storytelling, Purpose, Action, Relationships, and Kudos. Knowing how to tell a well-structured story is key to building long-term memory. Stating a clear purpose that doesn't take away from the discovery learning process is critical. Ensuring that people move from theory to practical application is imperative. Creating strong social learning is the key to commitment and engagement. Validating and affirming participants' comments is the way to create a positive learning environment.
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Digital Transformation and IT Strategy Toolkit and TemplatesAurelien Domont, MBA
This Digital Transformation and IT Strategy Toolkit was created by ex-McKinsey, Deloitte and BCG Management Consultants, after more than 5,000 hours of work. It is considered the world's best & most comprehensive Digital Transformation and IT Strategy Toolkit. It includes all the Frameworks, Best Practices & Templates required to successfully undertake the Digital Transformation of your organization and define a robust IT Strategy.
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Implicitly or explicitly all competing businesses employ a strategy to select a mix
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A personal brand exploration presentation summarizes an individual's unique qualities and goals, covering strengths, values, passions, and target audience. It helps individuals understand what makes them stand out, their desired image, and how they aim to achieve it.
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Improving profitability for small businessBen Wann
In this comprehensive presentation, we will explore strategies and practical tips for enhancing profitability in small businesses. Tailored to meet the unique challenges faced by small enterprises, this session covers various aspects that directly impact the bottom line. Attendees will learn how to optimize operational efficiency, manage expenses, and increase revenue through innovative marketing and customer engagement techniques.
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Sustainability has become an increasingly critical topic as the world recognizes the need to protect our planet and its resources for future generations. Sustainability means meeting our current needs without compromising the ability of future generations to meet theirs. It involves long-term planning and consideration of the consequences of our actions. The goal is to create strategies that ensure the long-term viability of People, Planet, and Profit.
Leading companies such as Nike, Toyota, and Siemens are prioritizing sustainable innovation in their business models, setting an example for others to follow. In this Sustainability training presentation, you will learn key concepts, principles, and practices of sustainability applicable across industries. This training aims to create awareness and educate employees, senior executives, consultants, and other key stakeholders, including investors, policymakers, and supply chain partners, on the importance and implementation of sustainability.
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1. Develop a comprehensive understanding of the fundamental principles and concepts that form the foundation of sustainability within corporate environments.
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