Talk given to the NLM Fellows on July 8, 2016. Touches on Cancer Genomics, Open Science and PMI: FAIR in NCI genomics thinking and projects. Includes discussion of the Genomic Data Commons (GDC), Cancer Data Ecosystem, Data sharing, and the NCI cancer clinical trials open API.
Cancer Moonshot, Data sharing and the Genomic Data CommonsWarren Kibbe
Gave the inaugural Informatics Grand Rounds at City of Hope on September 8th. NIH Commons, Genomic Data Commons, NCI Cloud Pilots, Cancer Moonshot and rationale for changing incentives around data sharing all discussed.
Nci clinical genomics data sharing ncra sept 2016Warren Kibbe
Gave an update on the Cancer Research Data Ecosystem, the Genomic Data Commons, Cloud Pilots, incentives for data sharing in cancer research to the NCI Council of Research Advocates (NCRA) on Monday, September 26th, 2016
National Cancer Data Ecosystem and Data SharingWarren Kibbe
Grand Rounds at the Siteman Cancer Center at Washington University. Highlighting the Genomic Data Commons and the National Cancer Data Ecosystem defined by the Cancer Moonshot Blue Ribbon Panel
Converged IT Summit - NCI Data SharingWarren Kibbe
Cancer Moonshot, Data Sharing, Genomic Data Commons, NCI Cloud Pilots, Cancer Research Data Ecosystem, technology advances, chemotherapy advances, MATCH, NCI Cancer Moonshot Blue Ribbon Panel Recommendations
DOE-NCI Pilots presentation at the Frederick National Laboratory Advisory Com...Warren Kibbe
May 2016 FNLAC presentation of the DOE-NCI partnership around three pilots focused on existing projects in NCI and existing NSCI directives and activities in DOE.
2016 Data Commons and Data Science Workshop June 7th and June 8th 2016. Genomic Data Commons, FAIR, NCI and making data more findable, publicly accessible, interoperable (machine readable), reusable and support recognition and attribution
Cancer Moonshot, Data sharing and the Genomic Data CommonsWarren Kibbe
Gave the inaugural Informatics Grand Rounds at City of Hope on September 8th. NIH Commons, Genomic Data Commons, NCI Cloud Pilots, Cancer Moonshot and rationale for changing incentives around data sharing all discussed.
Nci clinical genomics data sharing ncra sept 2016Warren Kibbe
Gave an update on the Cancer Research Data Ecosystem, the Genomic Data Commons, Cloud Pilots, incentives for data sharing in cancer research to the NCI Council of Research Advocates (NCRA) on Monday, September 26th, 2016
National Cancer Data Ecosystem and Data SharingWarren Kibbe
Grand Rounds at the Siteman Cancer Center at Washington University. Highlighting the Genomic Data Commons and the National Cancer Data Ecosystem defined by the Cancer Moonshot Blue Ribbon Panel
Converged IT Summit - NCI Data SharingWarren Kibbe
Cancer Moonshot, Data Sharing, Genomic Data Commons, NCI Cloud Pilots, Cancer Research Data Ecosystem, technology advances, chemotherapy advances, MATCH, NCI Cancer Moonshot Blue Ribbon Panel Recommendations
DOE-NCI Pilots presentation at the Frederick National Laboratory Advisory Com...Warren Kibbe
May 2016 FNLAC presentation of the DOE-NCI partnership around three pilots focused on existing projects in NCI and existing NSCI directives and activities in DOE.
2016 Data Commons and Data Science Workshop June 7th and June 8th 2016. Genomic Data Commons, FAIR, NCI and making data more findable, publicly accessible, interoperable (machine readable), reusable and support recognition and attribution
Day 2 Big Data panel at the NIH BD2K All Hands 2016 meetingWarren Kibbe
Big data in oncology and implications for open data, open science, rapid innovation, data reuse, reproducibility and data sharing. Cancer Moonshot, Precisions Medicine Initiative (PMI), the Genomic Data Commons, NCI Cloud Pilots, NCI-DOE Pilots, and the Cancer Research Data Ecosystem.
May 2016 NCI Cancer Center Directors meeting. Data Sharing and the Cancer Genomic Data Commons (GDC). Focus is on cancer genomic and clinical phenotype data.
CI4CC Moonshot Blue Ribbon Panel Report 20161010Warren Kibbe
Presentation to the Fall CI4CC meeting in Utah. CI4CC Moonshot Blue Ribbon Panel Report. Highlights of Vice President Biden's Cancer Moonshot and the NCI Blue Ribbon Panel Recommendations.
NCI Cancer Imaging Program - Cancer Research Data EcosystemWarren Kibbe
Given to the NCI Cancer Imaging Program monthly telecon on January 9th, 2017. NCI Genomic Data Commons, Beau Biden Cancer Moonshot Blue Ribbon Panel, Cancer Research Data Ecosystem and the role of imaging in precision medicine
FDA NGS and Big Data Conference September 2014Warren Kibbe
Presentation for the FDA NGS and Big Data Conference September 2014 held on the NIH campus. NCI initiatives, including Cancer Genomics Data Commons, NCI Cloud Pilots, big data issues for cancer
Day 2 Big Data panel at the NIH BD2K All Hands 2016 meetingWarren Kibbe
Big data in oncology and implications for open data, open science, rapid innovation, data reuse, reproducibility and data sharing. Cancer Moonshot, Precisions Medicine Initiative (PMI), the Genomic Data Commons, NCI Cloud Pilots, NCI-DOE Pilots, and the Cancer Research Data Ecosystem.
May 2016 NCI Cancer Center Directors meeting. Data Sharing and the Cancer Genomic Data Commons (GDC). Focus is on cancer genomic and clinical phenotype data.
CI4CC Moonshot Blue Ribbon Panel Report 20161010Warren Kibbe
Presentation to the Fall CI4CC meeting in Utah. CI4CC Moonshot Blue Ribbon Panel Report. Highlights of Vice President Biden's Cancer Moonshot and the NCI Blue Ribbon Panel Recommendations.
NCI Cancer Imaging Program - Cancer Research Data EcosystemWarren Kibbe
Given to the NCI Cancer Imaging Program monthly telecon on January 9th, 2017. NCI Genomic Data Commons, Beau Biden Cancer Moonshot Blue Ribbon Panel, Cancer Research Data Ecosystem and the role of imaging in precision medicine
FDA NGS and Big Data Conference September 2014Warren Kibbe
Presentation for the FDA NGS and Big Data Conference September 2014 held on the NIH campus. NCI initiatives, including Cancer Genomics Data Commons, NCI Cloud Pilots, big data issues for cancer
Taking Splunk to the Next Level - ArchitectureSplunk
Are you outgrowing your initial Splunk deployment? Is Splunk becoming mission critical and you need to make sure it's Enterprise ready? Attend this session led by Splunk experts to learn about taking your Splunk deployment to the next level. Learn about Splunk high availability architectures with Splunk Search Head Clustering and Index Replication. Additionally, learn how to manage your deployment with Splunk’s operational and management controls to manage Splunk capacity and end user experience.
Thoughts on a research platform architecture: Simplify your application portf...Pistoia Alliance
The lessons of SAP are relevant to research, where operational systems supporting business processes likely consume more than two thirds of an informatics portfolio. This poster from the Pistoia Alliance Conference in April 2011 postulates that open source solutions can provide SAP-like agility and cost effectiveness to life science organizations seeking to simplify their research informatics architecture.
This project has a $50,000 budget. This project has a $350,000 budget. This project is for your Mom’s book club, to be paid in tea cakes and Sunday dinners. How do you resize your user experience research, efforts, and deliverables to match the scope of the project and the size of your (client’s) wallet? And how do you keep user experience top of mind when there isn’t room for it in the top of the budget? Hear tips and tricks for loving your users at any price point.
Перевод – это специфический комплексный процесс, требующий комплексной же реализации профессиональных компетенций, предписанных ФГОС и подлежащих обязательному включению в рабочие программы дисциплины. Операции, соотнесенные с конкретными этапами переводческой работы (предпереводческий анализ и подготовка к переводу, перевыражение и постпереводческий анализ) не обязательно выполняются линейно, а обнаруживают взаимодействие и взаимопроникновение. Профессиональные переводческие компетенции не могут оцениваться изолированно друг от друга, т.к. обнаруживают тесное взаимодействие на всех этапах переводческой деятельности. Уровень владения профессиональными компетенциями может оцениваться лишь по переводу текста, а не отдельных фраз. Некорректное выполнение одной и той же операции и/или одна и та же ошибка (несоблюдение требований к переводу) могут быть вызваны недостаточным владением различными отдельными компетенциями, а также некорректным применением нескольких взаимодействующих компетенций. Попытка изолированного оценивания может привести к снижению качества профессиональной подготовки. Имеет смысл специально оговорить комплексный характер оценивания профессиональных компетенций в рабочих программах переводческих дисциплин.
SAMSI Precision Medicine Keynote, August 2018: Data: where Precision Oncology...Warren Kibbe
The promise of precision medicine in oncology is predicated on the availability of accurate, high quality data from the clinic and the laboratory. Likewise, a Learning Health System is one in which we use data to monitor that we are following guidelines and care pathways to deliver the best care and not revert to prior practices (regression testing for care!) and also provide real world evidence to determine effectiveness and identify populations that would benefit from novel therapies. Into this mix of clinical drivers are the rapidly changing capabilities in instrumentation, computing, computation, and the pervasive use of sensors and smart devices. I will highlight a few of the obvious and perhaps not as obvious opportunities in leveraging the increasingly digital landscape in healthcare and biomedical research as we move toward a national learning health system for cancer.
Clinical Research Informatics Year-in-Review 2024Peter Embi
Peter Embi, MD's presentation of Clinical Research Informatics year-in-review presented at the 2024 AMIA Informatics Summit in Boston, MA on March 20, 2024.
Sharing and standards christopher hart - clinical innovation and partnering...Christopher Hart
Acknowledging the increasing need for cooperation and collaboration in data sharing and access. Describing the complexity that this can bring. Then describing some of the ways to simplify that.
Originally presented at Terrapin's Clinical innovation and partnering world March 8-9 2017.
http://www.terrapinn.com/conference/innovation-and-partnering/index.stm
US Federal Cancer Moonshot- One Year LaterJerry Lee
Presentation from former Cancer Moonshot Data and Technology Track Co-chairs Jerry S.H. Lee, PhD (NCI, former OVP) and Dimitri Kusnezov, PhD (DOE) to update on efforts that will help realize the Data/Tech Track's vision of a national learning healthcare system for cancer. These include NCI/DOE pilots, DOE/VA pilot, NCI GDC, DoD/VA/NCI APOLLO, NCI/GSK ATOM, and BloodPAC.
Lessons from the UK: Data access, patient trust & real-world impact with heal...Varsha Khodiyar
Slides supporting presentation given at the virtual Beilstein Open Science Symposium in October 2021.
Abstract:
Health Data Research UK’s mission is to unite the UK’s health data to enable discoveries that improve people’s lives. Our 20-year vision is for large scale data and advanced analytics to benefit every patient interaction, clinical trial, biomedical discovery and enhance public health. A key part of HDR UK’s vision is our data portal, the Innovation Gateway. The Gateway facilitates discovery of healthcare data and simplifies data request procedures across multiple data custodians. The Gateway contains metadata on a variety of datasets, including those related to COVID-19, cardiovascular, maternal health, emergency care, primary care, secondary care, acute care, palliative care, biobanks, research cohorts and deeply phenotyped patient cohorts.
From the outset HDR UK has sought the voices, views and experiences of patient and lay-public groups to ensure there is transparency and clear public benefit in the use of the UK’s health data. Patient and public involvement is key to making the Gateway accessible, transparent and to ensure public confidence in research access to health data. The importance of public outreach combined with providing research access to data is illustrated with HDR UK’s contribution to the UK’s coronavirus pandemic response. HDR UK was tasked by the UK’s Chief Scientific Office to build and facilitate the infrastructure to support the National Core Studies, providing key insights on the evolving situation to UK policy makers during the course of the pandemic.
In this talk, I will show how HDR UK is enabling open science by facilitating the discovery of health data, and simplifying the process of requesting access to multiple datasets. I’ll discuss HDR UK’s approach to embedding transparency on research data usage for patients and public, and summarise some of the key ways in which HDR UK has contributed to the coronavirus pandemic.
Digital transformation to enable a FAIR approach for health data scienceVarsha Khodiyar
Invited talk for ConTech Pharma on 1st March 2022
Abstract
Health Data Research UK is the UK’s national institute for health data science, with a mission to unite the UK’s health data to enable discoveries that improve people’s lives. In this talk, Dr Varsha Khodiyar will outline how HDR UK is bringing together disparate health data from all four countries of the United Kingdom, creating the infrastructure to enable discovery of and access to health data, and the convening standards making bodies to improve data linkage and data reuse. Varsha will also discuss how HDR UK is moving beyond the traditional confines of FAIR data to also ensure that data sharing and data use is transparent and ‘fair’ for the patients and lay public who are the subjects of these datasets.
Data Harmonization for a Molecularly Driven Health SystemWarren Kibbe
Seminar for Dr. Min Zhang's Purdue Bioinformatics Seminar Series. Touched on learning health systems, the Gen3 Data Commons, the NCI Genomic Data Commons, Data Harmonization, FAIR, and open science.
Similar to NCI Cancer Genomics, Open Science and PMI: FAIR (20)
Overview of the NIH-funded RADx-UP - Rapid Acceleration of Diagnostics - Underserved Populations (RADx-UP) Coordination and Data Collection Center (CDCC) with a focus on the Common Data Elements used to gather data across the RADx-UP Consortium for COVID-19 testing.
RADx-UP CDCC presentation for the NIH Disaster Interest GroupWarren Kibbe
Presentation on the RADx-Underserved Populations Coordination and Data Collection Center with an emphasis on how it will help understand and reduce the disparities associated with the COVDI-19 pandemic
Data Harmonization for a Molecularly Driven Health SystemWarren Kibbe
Maximizing the value of data, computing, data science in an academic medical center, or 'towards a molecularly informed Learning Health System. Given in October at the University of Florida in Gainesville
Drivers for data sharing in funding of biomedical research. Importance of data sharing on open science, innovation, reproducibility that is enabled by digital technologies and data science.
Data in precision oncology SAMSI Precision Medicine Meeting mar 2019Warren Kibbe
Talk at the March 14-15 2019 SAMSI Advances in Precision and Personalized Medicine held as part of the Program on Statistical, Mathematical, and Computational Methods for Precision Medicine (PMED) at NCSU, Raleigh, NC
Opportunities in technology and connected health for population science Warren Kibbe
AACR Modernizing Population Science in the Digital Age MEG meeting.Keynote on Opportunities in technology and connected health for population science from February 2019
Focus is on the cancer data science and informatics community, a sad farewell to our friend and colleague Paul Fearn, kudos to Frank Manion, Mia Levy, and Samir Courdy. A little bit of overall change in cancer therapies, informatics, technology, and of course data science. A few highlights from publications as well!
Pace of technology innovation, changes in publication, separating data generation from publishing insights. Given at the 2018 VIVO conference at Duke University.
micro teaching on communication m.sc nursing.pdfAnurag Sharma
Microteaching is a unique model of practice teaching. It is a viable instrument for the. desired change in the teaching behavior or the behavior potential which, in specified types of real. classroom situations, tends to facilitate the achievement of specified types of objectives.
Title: Sense of Smell
Presenter: Dr. Faiza, Assistant Professor of Physiology
Qualifications:
MBBS (Best Graduate, AIMC Lahore)
FCPS Physiology
ICMT, CHPE, DHPE (STMU)
MPH (GC University, Faisalabad)
MBA (Virtual University of Pakistan)
Learning Objectives:
Describe the primary categories of smells and the concept of odor blindness.
Explain the structure and location of the olfactory membrane and mucosa, including the types and roles of cells involved in olfaction.
Describe the pathway and mechanisms of olfactory signal transmission from the olfactory receptors to the brain.
Illustrate the biochemical cascade triggered by odorant binding to olfactory receptors, including the role of G-proteins and second messengers in generating an action potential.
Identify different types of olfactory disorders such as anosmia, hyposmia, hyperosmia, and dysosmia, including their potential causes.
Key Topics:
Olfactory Genes:
3% of the human genome accounts for olfactory genes.
400 genes for odorant receptors.
Olfactory Membrane:
Located in the superior part of the nasal cavity.
Medially: Folds downward along the superior septum.
Laterally: Folds over the superior turbinate and upper surface of the middle turbinate.
Total surface area: 5-10 square centimeters.
Olfactory Mucosa:
Olfactory Cells: Bipolar nerve cells derived from the CNS (100 million), with 4-25 olfactory cilia per cell.
Sustentacular Cells: Produce mucus and maintain ionic and molecular environment.
Basal Cells: Replace worn-out olfactory cells with an average lifespan of 1-2 months.
Bowman’s Gland: Secretes mucus.
Stimulation of Olfactory Cells:
Odorant dissolves in mucus and attaches to receptors on olfactory cilia.
Involves a cascade effect through G-proteins and second messengers, leading to depolarization and action potential generation in the olfactory nerve.
Quality of a Good Odorant:
Small (3-20 Carbon atoms), volatile, water-soluble, and lipid-soluble.
Facilitated by odorant-binding proteins in mucus.
Membrane Potential and Action Potential:
Resting membrane potential: -55mV.
Action potential frequency in the olfactory nerve increases with odorant strength.
Adaptation Towards the Sense of Smell:
Rapid adaptation within the first second, with further slow adaptation.
Psychological adaptation greater than receptor adaptation, involving feedback inhibition from the central nervous system.
Primary Sensations of Smell:
Camphoraceous, Musky, Floral, Pepperminty, Ethereal, Pungent, Putrid.
Odor Detection Threshold:
Examples: Hydrogen sulfide (0.0005 ppm), Methyl-mercaptan (0.002 ppm).
Some toxic substances are odorless at lethal concentrations.
Characteristics of Smell:
Odor blindness for single substances due to lack of appropriate receptor protein.
Behavioral and emotional influences of smell.
Transmission of Olfactory Signals:
From olfactory cells to glomeruli in the olfactory bulb, involving lateral inhibition.
Primitive, less old, and new olfactory systems with different path
Flu Vaccine Alert in Bangalore Karnatakaaddon Scans
As flu season approaches, health officials in Bangalore, Karnataka, are urging residents to get their flu vaccinations. The seasonal flu, while common, can lead to severe health complications, particularly for vulnerable populations such as young children, the elderly, and those with underlying health conditions.
Dr. Vidisha Kumari, a leading epidemiologist in Bangalore, emphasizes the importance of getting vaccinated. "The flu vaccine is our best defense against the influenza virus. It not only protects individuals but also helps prevent the spread of the virus in our communities," he says.
This year, the flu season is expected to coincide with a potential increase in other respiratory illnesses. The Karnataka Health Department has launched an awareness campaign highlighting the significance of flu vaccinations. They have set up multiple vaccination centers across Bangalore, making it convenient for residents to receive their shots.
To encourage widespread vaccination, the government is also collaborating with local schools, workplaces, and community centers to facilitate vaccination drives. Special attention is being given to ensuring that the vaccine is accessible to all, including marginalized communities who may have limited access to healthcare.
Residents are reminded that the flu vaccine is safe and effective. Common side effects are mild and may include soreness at the injection site, mild fever, or muscle aches. These side effects are generally short-lived and far less severe than the flu itself.
Healthcare providers are also stressing the importance of continuing COVID-19 precautions. Wearing masks, practicing good hand hygiene, and maintaining social distancing are still crucial, especially in crowded places.
Protect yourself and your loved ones by getting vaccinated. Together, we can help keep Bangalore healthy and safe this flu season. For more information on vaccination centers and schedules, residents can visit the Karnataka Health Department’s official website or follow their social media pages.
Stay informed, stay safe, and get your flu shot today!
NVBDCP.pptx Nation vector borne disease control programSapna Thakur
NVBDCP was launched in 2003-2004 . Vector-Borne Disease: Disease that results from an infection transmitted to humans and other animals by blood-feeding arthropods, such as mosquitoes, ticks, and fleas. Examples of vector-borne diseases include Dengue fever, West Nile Virus, Lyme disease, and malaria.
263778731218 Abortion Clinic /Pills In Harare ,sisternakatoto
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Tom Selleck Health: A Comprehensive Look at the Iconic Actor’s Wellness Journeygreendigital
Tom Selleck, an enduring figure in Hollywood. has captivated audiences for decades with his rugged charm, iconic moustache. and memorable roles in television and film. From his breakout role as Thomas Magnum in Magnum P.I. to his current portrayal of Frank Reagan in Blue Bloods. Selleck's career has spanned over 50 years. But beyond his professional achievements. fans have often been curious about Tom Selleck Health. especially as he has aged in the public eye.
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Introduction
Many have been interested in Tom Selleck health. not only because of his enduring presence on screen but also because of the challenges. and lifestyle choices he has faced and made over the years. This article delves into the various aspects of Tom Selleck health. exploring his fitness regimen, diet, mental health. and the challenges he has encountered as he ages. We'll look at how he maintains his well-being. the health issues he has faced, and his approach to ageing .
Early Life and Career
Childhood and Athletic Beginnings
Tom Selleck was born on January 29, 1945, in Detroit, Michigan, and grew up in Sherman Oaks, California. From an early age, he was involved in sports, particularly basketball. which played a significant role in his physical development. His athletic pursuits continued into college. where he attended the University of Southern California (USC) on a basketball scholarship. This early involvement in sports laid a strong foundation for his physical health and disciplined lifestyle.
Transition to Acting
Selleck's transition from an athlete to an actor came with its physical demands. His first significant role in "Magnum P.I." required him to perform various stunts and maintain a fit appearance. This role, which he played from 1980 to 1988. necessitated a rigorous fitness routine to meet the show's demands. setting the stage for his long-term commitment to health and wellness.
Fitness Regimen
Workout Routine
Tom Selleck health and fitness regimen has evolved. adapting to his changing roles and age. During his "Magnum, P.I." days. Selleck's workouts were intense and focused on building and maintaining muscle mass. His routine included weightlifting, cardiovascular exercises. and specific training for the stunts he performed on the show.
Selleck adjusted his fitness routine as he aged to suit his body's needs. Today, his workouts focus on maintaining flexibility, strength, and cardiovascular health. He incorporates low-impact exercises such as swimming, walking, and light weightlifting. This balanced approach helps him stay fit without putting undue strain on his joints and muscles.
Importance of Flexibility and Mobility
In recent years, Selleck has emphasized the importance of flexibility and mobility in his fitness regimen. Understanding the natural decline in muscle mass and joint flexibility with age. he includes stretching and yoga in his routine. These practices help prevent injuries, improve posture, and maintain mobilit
Recomendações da OMS sobre cuidados maternos e neonatais para uma experiência pós-natal positiva.
Em consonância com os ODS – Objetivos do Desenvolvimento Sustentável e a Estratégia Global para a Saúde das Mulheres, Crianças e Adolescentes, e aplicando uma abordagem baseada nos direitos humanos, os esforços de cuidados pós-natais devem expandir-se para além da cobertura e da simples sobrevivência, de modo a incluir cuidados de qualidade.
Estas diretrizes visam melhorar a qualidade dos cuidados pós-natais essenciais e de rotina prestados às mulheres e aos recém-nascidos, com o objetivo final de melhorar a saúde e o bem-estar materno e neonatal.
Uma “experiência pós-natal positiva” é um resultado importante para todas as mulheres que dão à luz e para os seus recém-nascidos, estabelecendo as bases para a melhoria da saúde e do bem-estar a curto e longo prazo. Uma experiência pós-natal positiva é definida como aquela em que as mulheres, pessoas que gestam, os recém-nascidos, os casais, os pais, os cuidadores e as famílias recebem informação consistente, garantia e apoio de profissionais de saúde motivados; e onde um sistema de saúde flexível e com recursos reconheça as necessidades das mulheres e dos bebês e respeite o seu contexto cultural.
Estas diretrizes consolidadas apresentam algumas recomendações novas e já bem fundamentadas sobre cuidados pós-natais de rotina para mulheres e neonatos que recebem cuidados no pós-parto em unidades de saúde ou na comunidade, independentemente dos recursos disponíveis.
É fornecido um conjunto abrangente de recomendações para cuidados durante o período puerperal, com ênfase nos cuidados essenciais que todas as mulheres e recém-nascidos devem receber, e com a devida atenção à qualidade dos cuidados; isto é, a entrega e a experiência do cuidado recebido. Estas diretrizes atualizam e ampliam as recomendações da OMS de 2014 sobre cuidados pós-natais da mãe e do recém-nascido e complementam as atuais diretrizes da OMS sobre a gestão de complicações pós-natais.
O estabelecimento da amamentação e o manejo das principais intercorrências é contemplada.
Recomendamos muito.
Vamos discutir essas recomendações no nosso curso de pós-graduação em Aleitamento no Instituto Ciclos.
Esta publicação só está disponível em inglês até o momento.
Prof. Marcus Renato de Carvalho
www.agostodourado.com
Basavarajeeyam is an important text for ayurvedic physician belonging to andhra pradehs. It is a popular compendium in various parts of our country as well as in andhra pradesh. The content of the text was presented in sanskrit and telugu language (Bilingual). One of the most famous book in ayurvedic pharmaceutics and therapeutics. This book contains 25 chapters called as prakaranas. Many rasaoushadis were explained, pioneer of dhatu druti, nadi pareeksha, mutra pareeksha etc. Belongs to the period of 15-16 century. New diseases like upadamsha, phiranga rogas are explained.
1. Cancer Genomics, Open
Science and PMI: FAIR in NCI
genomics thinking and projects
July 8th, 2016
Warren Kibbe, PhD
NCI Center for Biomedical Informatics
@wakibbe
2. 2
Cancer Data Sharing,
Open Source Software,
Computation
• Support open science
• Support data reusability
• Cancer Moonshot
• Precision Medicine
• Clinical Trials
Reduce the risk, improve early detection, outcomes and survivorship in cancer
3. 3
To develop the knowledge base
that will lessen the burden of
cancer in the United States and
around the world.
NCI Mission
7. 7
Open Science Assumption
Open sharing enhances reusability and reproducibility
Requires Open:
Data
Algorithms
Software
Annotations
Standards
8. 8
Changing the conversation around data sharing
How do we find data, software, standards?
How can we make data, annotations, software, metadata accessible?
How do we reuse data standards
How do we make more data machine readable?
NIH Data Commons
9. Data Commons
Data commons co-locate data, storage and computing infrastructure,
and commonly used tools for analyzing and sharing data to create
an interoperable resource for the research community.
*Robert L. Grossman, Allison Heath, Mark Murphy, Maria Patterson, A Case for Data Commons Towards Data Science as a
Service, to appear. Source of image: Interior of one of Google’s Data Center, www.google.com/about/datacenters/.
11. 11
NIH Genomic Data Sharing Policy
https://gds.nih.gov/
Went into effect January 25, 2015
NCI guidance:
http://www.cancer.gov/grants-training/grants-
management/nci-policies/genomic-data
Requires public sharing of genomic data sets
16. 16
Moonshot Outline
• Genomic Data Commons
• Rethinking Clinical Trial Search
- Development of Application Programming Interface (API) to NCI’s Clinical Trials
Reporting Program, for use by:
- NCI’s Cancer.gov website
- Third party innovators providing clinical trial content to their communities
• Vice President’s Moonshot Summit – June 29, 2016
17. 17
Genomic Data Commons
• Unified knowledge base that promotes sharing of genomic and clinical
data between researchers and facilitates precision medicine in
oncology
• Contains standardized data from approximately 14,500 patients,
derived from NCI programs, including:
- The Cancer Genome Atlas (TCGA)
- Therapeutically Applicable Research to Generate Effective Treatment
(TARGET)
- Cancer Genome Characterization Initiative (CGCI)
- The Cancer Line Encyclopedia (CCLE)
22. Vice President Biden’s Cancer Initiative
January 2016
22
Federal Government Cancer Task Force – how can the federal agencies work together to:
Accelerate our understanding of cancer and its prevention, early detection, treatment,
and cure
Improve patient access and care
Support greater access to new research, data, and computational capabilities
Encourage development of cancer treatments
Identify and address any unnecessary regulatory barriers and consider ways to
expedite administrative reforms
Ensure optimal investment of federal resources
Identify opportunities to develop public–private partnerships and increase coordination
of the federal government’s efforts with the private sector, as appropriate
23. Vice President Biden’s Cancer Initiative
January 2016
23
Scientific Objectives of the Vice President’s Cancer Initiative Blue Ribbon Panel
Prevention and Cancer Vaccine Development
Early Cancer Detection
Cancer Immunotherapy and Combination Therapy
Genomic Analysis of Tumor and Surrounding Cells
Enhanced Data Sharing
Oncology Center of Excellence
Pediatric Cancer
Exceptional Scientific Opportunities in Cancer Research
http://www.cancer.gov/research/key-initiatives/moonshot-cancer-initiative/get-involved
31. 31
The Cancer Genomic Data Commons
(GDC) is an existing effort to
standardize and simplify submission of
genomic data to NCI and follow the
principles of FAIR – Findable,
Accessible, Interoperable, Reusable.
The GDC is part of the NIH Big Data to
Knowledge (BD2K) initiative and an
example of the NIH Commons
Genomic Data Commons
Microattribution, nanopublications, tracking the
use of data, annotation of data, use of
algorithms, supports the data /software
/metadata life cycle to provide credit and
analyze impact of data, software, analytics,
algorithm, curation and knowledge sharing
32. NCI Genomic Data Commons
The GDC will go live with approximately 4.1 PB of data.
This includes: 2.6 PB of legacy data;
and 1.5 PB of “harmonized” data.
577,878 files about 14194 cases (patients), in 42 cancer types,
across 29 primary sites.
10 major data types, ranging from Raw Sequencing Data, Raw
Microarray Data, to Copy Number Variation, Simple Nucleotide
Variation and Gene Expression.
Data are derived from 17 different experimental strategies, with the
major ones being RNA-Seq, WXS, WGS, miRNA-Seq, Genotyping
Array and Expression Array.
38. Development of the NCI Genomic Data Commons (GDC)
To Foster the Molecular Diagnosis and Treatment of Cancer
GDC
Bob Grossman PI
Univ. of Chicago
Ontario Inst. Cancer Res.
Leidos
Institute of Medicine
Towards Precision Medicine
2011
39. 39
Support the Precision Medicine Initiative
• Expand data model to include
other data (e.g. imaging and
proteomics)
• Allow easy publication of
persistent links to data,
annotations, algorithms, tools,
workflows
• Measure usage and impact
• Change incentives for public
contributions
The Genomic Data Commons and Cloud Pilots
40. Cancer data ecosystem
Well characterized
genomic data sets Cancer cohorts Patient data
EHR, lab data, PROs,
smart devices,
decision support
Learning from every
cancer patient
Active research
participation
Genomic information
donor
Clinical Research
Observational studies
Genomic research
Clinical trials with
genomic data
Discovery
Patient engaged
Research
Surveillance
Big Data
Implementation research
SEER
41. 41
Genomic Commons Ecosystem
Genomic Data Commons
ISB Cloud SBG CloudBroad Cloud
Web users
Submitters New algorithms,
tools, visualization API users
GA4GH APIsS3 API
Data Validation
and
Harmonization
Compute
Analytics
Visualization
42. 42
PMI – Oncology, the GDC and the Cloud Pilots Goals
Support precision medicine-focused clinical research
Enable researchers to deposit well-annotated
(Interoperable) genomic data sets with the GDC
Provide a single source (and single dbGaP access
request!) to Find and Access these data
Enable effective analysis and meta-analysis of these data
without requiring local downloads – data Reuse
Understand Contributions, Assess value through usage,
and give Attribution to all users
43. 43
PMI – Oncology, the GDC and the Cloud Pilots Goals
Provide a data integration platform to allow multiple data
types, multi-scalar data, temporal data from cancer models
and patients through open APIs
Work with the Global Alliance for Genomics and Health
(GA4GH) to define the next generation of secure,
flexible, meaningful, interoperable, lightweight
interfaces – open APIs
Engage the cancer research community in evaluating
the open APIs for ease of use and effectiveness
44. 44
Three Cancer Genomics Cloud Pilots
• PI: Gad Getz
• Google Cloud
• Firehose in the cloud
• http://firecloud.org
Broad Institute
• PI: Ilya Shmulevich
• Google Cloud
• Interactive visualization and analysis
• http://cgc.systemsbiology.net/
Institute for
Systems
Biology
• PI: Deniz Kural
• Amazon Web Services
• > 30 public pipelines
• http://www.cancergenomicscloud.org
Seven Bridges
Genomics
45. CGC Pilot Team Principal Investigators
• Gad Getz, Ph.D - Broad Institute - http://firecloud.org
• Ilya Shmulevich, Ph.D - ISB - http://cgc.systemsbiology.net/
• Deniz Kural, Ph.D - Seven Bridges – http://www.cancergenomicscloud.org
NCI Project Officer & CORs
• Anthony Kerlavage, Ph.D –Project Officer
• Juli Klemm, Ph.D – COR, Broad Institute
• Tanja Davidsen, Ph.D – COR, Institute for Systems Biology
• Ishwar Chandramouliswaran, MS, MBA – COR, Seven Bridges Genomics
GDC Principal Investigator
• Robert Grossman, Ph.D - University of Chicago
Cancer Genomics Project Teams
NCI Leadership Team
• Doug Lowy, M.D.
• Lou Staudt, M.D., Ph.D.
• Stephen Chanock, M.D.
• George Komatsoulis, Ph.D.
• Warren Kibbe, Ph.D.
Center for Cancer Genomics Partners
• JC Zenklusen, Ph.D.
• Daniela Gerhard, Ph.D.
• Zhining Wang, Ph.D.
• Liming Yang, Ph.D.
• Martin Ferguson, Ph.D.
47. Rethinking Clinical Trials Search
Engaging the Presidential Innovation Fellows
Create an Application Programming Interface (API) for Clinical Trials
Create an example search interface based on the API
Create a twitter feed for all new clinical trials
Incorporation of these innovations into cancer.gov
7/13/2016
48. 48
Rethinking and Enhancing Clinical Trial Search: June, 2016
• Initial Release of an API (Application Programming Interface) (API)1, developed by the
Presidential Innovation Fellows, for testing. This tool, found at
https://clinicaltrialsapi.cancer.gov, makes publicly available trial registration information
from the CTRP database, currently found on cancer.gov, assessable to third-party
innovators so that they can build new digital tools tailored to the clinical trial search
needs of their users.
• Launch of @NCICancerTrials on Twitter and dissemination of clinical trial information
via GovDelivery: https://public.govdelivery.com/accounts/USNIHNCI/subscriber/new
• Changes the Cancer.gov Website to enhance clinical trial searching
1A set of protocols designed to provide communication between a software application and a computer
operating system or between applications.
57. 57
Cancer Moonshot Summit - Announcements on June 29th
• NCI-pharma & Biotech Formulary
• Applied Proteogenomics OrganizationaL Learning and Outcomes
(APOLLO) NCI-DoD-VA
• NCI – DOE partnership to incorporate computational science into
cancer research
• NIH Partnership for Accelerating Cancer Therapies (PACT) –
collaboration with 12 biopharmaceutical companies
• NCI, DOE, and GlaxoSmithKline public-private-partnership for using
high performance computing in drug development
58. 58
Cancer Moonshot Summit – Announcements on June 29th
• Genomic Data Commons (https://gdc.nci.nih.gov) went live June 6th
and is a data sharing point for clinical and basic science data
generating genomic information
• CTRP data:
- NCI Clinical Trials Search https://trials.cancer.gov
- NCI Clinical Trials API https://clinicaltrialsapi.cancer.gov