The Business of Genomic Testing by James CrawfordKnome_Inc
View this webinar at: http://www.knome.com/webinar-business-of-genomic-testing. This presentation discusses the findings of a College of American Pathologists survey of “early adopters” of NGS recently published in "Genetics in Medicine". The study objective was to identify the reasons for health systems to bring next-generation sequencing into their clinical laboratories and to understand the process by which such decisions were made. A standardized open-ended interview was conducted with the laboratory medical directors and/or department of pathology chairs of 13 different academic institutions in 10 different states.
Transforming Science Education in An Age of MisinformationCarl Bergstrom
Keynote at theNorthwest Commission on Colleges and Universities annual meeting. I argue that if we want to address science misinformation on social media and beyond, we need to teach (1) data reasoning and (2) an understanding of the social process of science.
The Business of Genomic Testing by James CrawfordKnome_Inc
View this webinar at: http://www.knome.com/webinar-business-of-genomic-testing. This presentation discusses the findings of a College of American Pathologists survey of “early adopters” of NGS recently published in "Genetics in Medicine". The study objective was to identify the reasons for health systems to bring next-generation sequencing into their clinical laboratories and to understand the process by which such decisions were made. A standardized open-ended interview was conducted with the laboratory medical directors and/or department of pathology chairs of 13 different academic institutions in 10 different states.
Transforming Science Education in An Age of MisinformationCarl Bergstrom
Keynote at theNorthwest Commission on Colleges and Universities annual meeting. I argue that if we want to address science misinformation on social media and beyond, we need to teach (1) data reasoning and (2) an understanding of the social process of science.
The Future of Life Sciences 2013 for Max Planck InstituteMelanie Swan
Top 10 List of Life Sciences Opportunities - The next wave of the biotechnology revolution is underway and promises to reshape the world in ways even more transformative than the agricultural, industrial and information revolutions that preceded it. It is not nimaginable that at some point, all biological processes, human and otherwise, will be understood and managed. Some of the most likely sources of life sciences discontinuities are genomic sequencing and synthesis, synthetic biology, nanoscience and aging.
Univ of Miami CTSI: Citizen science seminar; Oct 2014Richard Bookman
The University of Miami's Clinical & Translational Science Institute runs a seminar course for MS students.
This talk surveys 8 citizen science projects, reviews NIH's current activities, and identifies issues for attention, particularly with ethical, legal and social implications.
A 45minute talk on the basics of Web 2, IT and medicine, particularly focussing on Web 2 tools that can be used by doctors and patients. Also a brief look at accessing these and other tools via portable means, demonstrated with my iPhone.
Doing more with less resources used to be a situation common just for academic scientists. This is unfortunately still true for academics but we are seeing others facing many of the same challenges. With the squeeze on budgets and cost cutting resulting from recent worldwide economic challenges, the failure of many drugs to make it through the pipeline to the market, and the increasing costs associated with the drug development process, we are now seeing in the pharmaceutical industry a dramatic shift, perhaps belatedly, to have to accommodate similar challenges of doing more with less
The State of Open Data Report by @figshare.
A selection of analyses and articles about open data, curated by Figshare
Foreword by Professor Sir Nigel Shadbolt
OCTOBER 2016
This presentation outlines a mechanism for using the power of "Big Data", social networking and technology infrastructure to speed the process of curing a horrible disease.
Second only to the general concept of Web 2.0, virtual worlds are the source of more articles in PubMed than any other emerging social technology. Of the many virtual worlds, Second Life (a free, open source 3d virtual world platform) is the one with the strongest presence in health care communities, from patient groups and medical education to research and professional meetings. Second Life can enable health systems to create either public or secure private spaces for functions from patient education, outreach, staff training, remote meetings, or more. As with any social technology, understanding the context and norms of the online space are essential to making institutional engagement a success. In this session, we will look at case studies illustrating how some organizations have used Second Life for communication, collaboration and community engagement.
NCI Cancer Genomics, Open Science and PMI: FAIR Warren Kibbe
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.
The challenges of the Digital Age creates a sea of opportunities for technologists. Developing software transforms the economic, political, cultural, and social reality of countries.
On the one hand, a larger part of the population does not know the downside of IT, which does not decrease our great responsibility. On the other hand, technologists do not always know how to make ethical decisions in day-to-day systems development. There is also a long discussion about the role of technology in the sustainability of the planet: after all, when IT is good or bad?
This lecture is an introduction to ethics and sustainability aimed at technologists who want to learn how to position themselves as professionals in the face of so many challenges and opportunities of the 21st century.
This slide is special for master students (MIBS & MIFB) in UUM. Also useful for readers who are interested in the topic of contemporary Islamic banking.
The Future of Life Sciences 2013 for Max Planck InstituteMelanie Swan
Top 10 List of Life Sciences Opportunities - The next wave of the biotechnology revolution is underway and promises to reshape the world in ways even more transformative than the agricultural, industrial and information revolutions that preceded it. It is not nimaginable that at some point, all biological processes, human and otherwise, will be understood and managed. Some of the most likely sources of life sciences discontinuities are genomic sequencing and synthesis, synthetic biology, nanoscience and aging.
Univ of Miami CTSI: Citizen science seminar; Oct 2014Richard Bookman
The University of Miami's Clinical & Translational Science Institute runs a seminar course for MS students.
This talk surveys 8 citizen science projects, reviews NIH's current activities, and identifies issues for attention, particularly with ethical, legal and social implications.
A 45minute talk on the basics of Web 2, IT and medicine, particularly focussing on Web 2 tools that can be used by doctors and patients. Also a brief look at accessing these and other tools via portable means, demonstrated with my iPhone.
Doing more with less resources used to be a situation common just for academic scientists. This is unfortunately still true for academics but we are seeing others facing many of the same challenges. With the squeeze on budgets and cost cutting resulting from recent worldwide economic challenges, the failure of many drugs to make it through the pipeline to the market, and the increasing costs associated with the drug development process, we are now seeing in the pharmaceutical industry a dramatic shift, perhaps belatedly, to have to accommodate similar challenges of doing more with less
The State of Open Data Report by @figshare.
A selection of analyses and articles about open data, curated by Figshare
Foreword by Professor Sir Nigel Shadbolt
OCTOBER 2016
This presentation outlines a mechanism for using the power of "Big Data", social networking and technology infrastructure to speed the process of curing a horrible disease.
Second only to the general concept of Web 2.0, virtual worlds are the source of more articles in PubMed than any other emerging social technology. Of the many virtual worlds, Second Life (a free, open source 3d virtual world platform) is the one with the strongest presence in health care communities, from patient groups and medical education to research and professional meetings. Second Life can enable health systems to create either public or secure private spaces for functions from patient education, outreach, staff training, remote meetings, or more. As with any social technology, understanding the context and norms of the online space are essential to making institutional engagement a success. In this session, we will look at case studies illustrating how some organizations have used Second Life for communication, collaboration and community engagement.
NCI Cancer Genomics, Open Science and PMI: FAIR Warren Kibbe
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.
The challenges of the Digital Age creates a sea of opportunities for technologists. Developing software transforms the economic, political, cultural, and social reality of countries.
On the one hand, a larger part of the population does not know the downside of IT, which does not decrease our great responsibility. On the other hand, technologists do not always know how to make ethical decisions in day-to-day systems development. There is also a long discussion about the role of technology in the sustainability of the planet: after all, when IT is good or bad?
This lecture is an introduction to ethics and sustainability aimed at technologists who want to learn how to position themselves as professionals in the face of so many challenges and opportunities of the 21st century.
This slide is special for master students (MIBS & MIFB) in UUM. Also useful for readers who are interested in the topic of contemporary Islamic banking.
A workshop hosted by the South African Journal of Science aimed at postgraduate students and early career researchers with little or no experience in writing and publishing journal articles.
Acetabularia Information For Class 9 .docxvaibhavrinwa19
Acetabularia acetabulum is a single-celled green alga that in its vegetative state is morphologically differentiated into a basal rhizoid and an axially elongated stalk, which bears whorls of branching hairs. The single diploid nucleus resides in the rhizoid.
June 3, 2024 Anti-Semitism Letter Sent to MIT President Kornbluth and MIT Cor...Levi Shapiro
Letter from the Congress of the United States regarding Anti-Semitism sent June 3rd to MIT President Sally Kornbluth, MIT Corp Chair, Mark Gorenberg
Dear Dr. Kornbluth and Mr. Gorenberg,
The US House of Representatives is deeply concerned by ongoing and pervasive acts of antisemitic
harassment and intimidation at the Massachusetts Institute of Technology (MIT). Failing to act decisively to ensure a safe learning environment for all students would be a grave dereliction of your responsibilities as President of MIT and Chair of the MIT Corporation.
This Congress will not stand idly by and allow an environment hostile to Jewish students to persist. The House believes that your institution is in violation of Title VI of the Civil Rights Act, and the inability or
unwillingness to rectify this violation through action requires accountability.
Postsecondary education is a unique opportunity for students to learn and have their ideas and beliefs challenged. However, universities receiving hundreds of millions of federal funds annually have denied
students that opportunity and have been hijacked to become venues for the promotion of terrorism, antisemitic harassment and intimidation, unlawful encampments, and in some cases, assaults and riots.
The House of Representatives will not countenance the use of federal funds to indoctrinate students into hateful, antisemitic, anti-American supporters of terrorism. Investigations into campus antisemitism by the Committee on Education and the Workforce and the Committee on Ways and Means have been expanded into a Congress-wide probe across all relevant jurisdictions to address this national crisis. The undersigned Committees will conduct oversight into the use of federal funds at MIT and its learning environment under authorities granted to each Committee.
• The Committee on Education and the Workforce has been investigating your institution since December 7, 2023. The Committee has broad jurisdiction over postsecondary education, including its compliance with Title VI of the Civil Rights Act, campus safety concerns over disruptions to the learning environment, and the awarding of federal student aid under the Higher Education Act.
• The Committee on Oversight and Accountability is investigating the sources of funding and other support flowing to groups espousing pro-Hamas propaganda and engaged in antisemitic harassment and intimidation of students. The Committee on Oversight and Accountability is the principal oversight committee of the US House of Representatives and has broad authority to investigate “any matter” at “any time” under House Rule X.
• The Committee on Ways and Means has been investigating several universities since November 15, 2023, when the Committee held a hearing entitled From Ivory Towers to Dark Corners: Investigating the Nexus Between Antisemitism, Tax-Exempt Universities, and Terror Financing. The Committee followed the hearing with letters to those institutions on January 10, 202
Exploiting Artificial Intelligence for Empowering Researchers and Faculty, In...Dr. Vinod Kumar Kanvaria
Exploiting Artificial Intelligence for Empowering Researchers and Faculty,
International FDP on Fundamentals of Research in Social Sciences
at Integral University, Lucknow, 06.06.2024
By Dr. Vinod Kumar Kanvaria
2024.06.01 Introducing a competency framework for languag learning materials ...Sandy Millin
http://sandymillin.wordpress.com/iateflwebinar2024
Published classroom materials form the basis of syllabuses, drive teacher professional development, and have a potentially huge influence on learners, teachers and education systems. All teachers also create their own materials, whether a few sentences on a blackboard, a highly-structured fully-realised online course, or anything in between. Despite this, the knowledge and skills needed to create effective language learning materials are rarely part of teacher training, and are mostly learnt by trial and error.
Knowledge and skills frameworks, generally called competency frameworks, for ELT teachers, trainers and managers have existed for a few years now. However, until I created one for my MA dissertation, there wasn’t one drawing together what we need to know and do to be able to effectively produce language learning materials.
This webinar will introduce you to my framework, highlighting the key competencies I identified from my research. It will also show how anybody involved in language teaching (any language, not just English!), teacher training, managing schools or developing language learning materials can benefit from using the framework.
Read| The latest issue of The Challenger is here! We are thrilled to announce that our school paper has qualified for the NATIONAL SCHOOLS PRESS CONFERENCE (NSPC) 2024. Thank you for your unwavering support and trust. Dive into the stories that made us stand out!
Executive Directors Chat Leveraging AI for Diversity, Equity, and InclusionTechSoup
Let’s explore the intersection of technology and equity in the final session of our DEI series. Discover how AI tools, like ChatGPT, can be used to support and enhance your nonprofit's DEI initiatives. Participants will gain insights into practical AI applications and get tips for leveraging technology to advance their DEI goals.
Introduction to AI for Nonprofits with Tapp NetworkTechSoup
Dive into the world of AI! Experts Jon Hill and Tareq Monaur will guide you through AI's role in enhancing nonprofit websites and basic marketing strategies, making it easy to understand and apply.
1. Bioinformatics for the Public Eye
WEB 2013 ISMBECCB 2013, Berlin
22 July 2013
Wednesday, July 24, 13
2. Bioinformatics for the Public Eye
WEB 2013 ISMBECCB 2013, Berlin
22 July 2013
Wednesday, July 24, 13
3. Technology overturn
The microscope, invented four centuries ago,
allowed people to see and measure things as never
before — at the cellular level. It was a revolution in
measurement.
Data measurement, is the modern equivalent of the
microscope.
“Google searches, Facebook posts and Twitter
messages, for example, make it possible to measure
behavior and sentiment in fine detail and as it
happens “ Erik Brynjolfsson MIT
2
Wednesday, July 24, 13
We are in the early inflexion point for the rise of NGS technology as omics functional genomics king. How can we address the rapid rise in demand for
expertise?
4. Big Data
Science, sports, advertising and public health
— a drift toward data-driven discovery and decision-making.
“It’s a revolution. We’re really just getting under way. But the march of
quantification, made possible by enormous new sources of data, will
sweep through academia, business and government. There is no area
that is going to be untouched.”
- Gary King, director of Harvard’s Institute for Quantitative Social Science
8
Wednesday, July 24, 13
As educators of the lay public, we need to provide a readily understandable proxy for bioinformatics. People have heard of big data - we should tell them about big biology data needing computational
analysis.
5. Volume
13 quadrillion DNA bases a year
(stack of DVDs two miles high)
30 000 human genomes in 2012
Several million within 2 years.
4
Wednesday, July 24, 13
Translating what we do into readily understandable terms such as “DVD” simplifies the concepts - but not the challenge
6. Data management
5
Wednesday, July 24, 13
Already, online media alerts us to the growing challenge, - twitter FB and G+ are great resources for what’s happening now in our science and what we
can expect soon
9. Public Interaction with Bioinformatics
Online technologies
News/social media
YouTube
Online courses
Online tools
8
Wednesday, July 24, 13
More online resources are appearing, that can assist - if used wisely - our education effort
10. Health
9
Wednesday, July 24, 13
The public is primarily interested in its health first - this is the major area where bioinformatics intersects with public ‘thirst for knowledge’
11. Will I get cancer?
10
Wednesday, July 24, 13
Either altruists, or the ultimate selfies, want to know what’s ‘in there’ for their future. The perception is that sharing genome data might help - perhaps we
should assist the NSA to interpret it?
12. Will I get cancer?
10
Wednesday, July 24, 13
Either altruists, or the ultimate selfies, want to know what’s ‘in there’ for their future. The perception is that sharing genome data might help - perhaps we
should assist the NSA to interpret it?
13. Will I get cancer?
Informed consent
How to understand my
genome data?
10
Wednesday, July 24, 13
Either altruists, or the ultimate selfies, want to know what’s ‘in there’ for their future. The perception is that sharing genome data might help - perhaps we
should assist the NSA to interpret it?
14. Angelina Jolie's BRCA1 gene and
her decision to have a double
mastectomy. It's hard not to be a bit
unnerved. I've always thought it better
to have information than not have
it, and that, anyway, you largely know
from your family history what nasty
diseases are floating around your gene
pool.
11
Wednesday, July 24, 13
Angelina has given us a gift in terms of public perception of the value of genome data. The Guardian UK has featured articles on self genomics - and
describes it in lay terms.
15. Genome variants
12
Wednesday, July 24, 13
The quest is for better understanding of the risk our genomes predict - but this is still a long term goal
17. Personal Incentive to genome variants
14
Wednesday, July 24, 13
My sister has Schizophrenia - I want to know more as to why - her report hints at developmental issues.
20. Public Information
17
medical practitioners
professionals working in the biomedical
sciences
motivated lay individuals interested in exploring
their personal genetic data
Wednesday, July 24, 13
This is a great book that you can share with trainees - motivating interest in the exploration of our own code.
21. Sharing for Personal Genome Data
18
Wednesday, July 24, 13
Our code cannot be interpreted if it is siloed - but to share it wisely and effectively needs new platforms - something the Xprize folks are considering for
the next challenge
23. 20
Wednesday, July 24, 13
The NYT did us a great favor when it published its commentary on ‘big DNA data’ - allowing us to educate those around us as to our field, and to raise
awareness of the work that needs to be done - and how to learn more about our code and its challenges
24. Bioinformatics
“We believe the field of bioinformatics for genetic analysis
will be one of the biggest areas of disruptive innovation in
life science tools over the next few years”
Goldman Sachs
21
Wednesday, July 24, 13
Because Big Data is now mainstream - its interpretation has economic potential. If Goldman Sachs is defining bioinformatics, rest assured it will be
monetised.
25. Hedge Funds
Where can I learn how to estimate the reagents used for Next Gen Sequencers?
Bioinformatics market alone “$38bn” in 2006
22
Wednesday, July 24, 13
Estimates of NGS technology use keeps hedge fund managers busy - they want education too.
28. Popular Press vs. Scientific Press
Students required to choose a gene that had been called the “smart gene,”
“fat gene,” “language gene,” and then compare scientific and popular
press.
Online resources
Twitter search
24
Public Access for Teaching Genomics, Proteomics,
and Bioinformatics - Cambell 2003
Wednesday, July 24, 13
By reviewing the original literature and then comparing it to the popular press, students can determine the (a) information that matters to the public (b)
how scientific information is transformed for the public interpretation
29. MOOCs
Public Access vs traditional models
25
Wednesday, July 24, 13
With broad sharing posisbilities of internet access public access comes of age for teaching - should our approaches drive or follow the new models?
30. Scale and reality
26
Wednesday, July 24, 13
We need to develop responsive new models to address the rapid increase in demand for NGS expertise.
31. Scale and reality
Why can’t you provide us a Khan Academy for NGS?
26
Wednesday, July 24, 13
We need to develop responsive new models to address the rapid increase in demand for NGS expertise.
32. Scale and reality
Why can’t you provide us a Khan Academy for NGS?
CSHL two week training course for 500 people?
26
Wednesday, July 24, 13
We need to develop responsive new models to address the rapid increase in demand for NGS expertise.
33. Scale and reality
Why can’t you provide us a Khan Academy for NGS?
CSHL two week training course for 500 people?
Why can’t my postdocs just take a workshop to analyze their
data?
26
Wednesday, July 24, 13
We need to develop responsive new models to address the rapid increase in demand for NGS expertise.
34. Scale and reality
Why can’t you provide us a Khan Academy for NGS?
CSHL two week training course for 500 people?
Why can’t my postdocs just take a workshop to analyze their
data?
Can you help with our analysis today?
26
Wednesday, July 24, 13
We need to develop responsive new models to address the rapid increase in demand for NGS expertise.
35. Addressing the challenge
Online resources and practical
Simplified online tools
Cloudman + Galaxy AWS instance
Guided collection of training blogs and resources
27
Wednesday, July 24, 13
Initial approach to online training coupled with dedicated training sessions
38. Commentary blogs
30
Wednesday, July 24, 13
commentary - including my own - increases awareness of the available approaches to performing bionformatics
41. Is most of our DNA
devoid of purpose
or does it play a
major role in our
cells?
33
Wednesday, July 24, 13
ENSEMBL debate is still current - stating something major takes major evidence - this time - that evidence was packaged in a way that it could be
questioned
44. 35
Wednesday, July 24, 13
training should be performed to generate capacity where it is needed, not where the researchers find it most convenient to perform study
45. Databases data
access?
Does GenBank have a monopoly on the
definition of open access?
36
Wednesday, July 24, 13
access to databases for high profile genetic data is a hot area of discussion
46. Response
- CDC promotes responsible sharing
of data
- GISAD is not GenBank
- GISAID is open to all
37
Wednesday, July 24, 13
public spat reveals that access models can have political and financial fallout.
49. Feedback to the scientists from the sample providers?
40
Wednesday, July 24, 13
50. Some roadblocks
Materials for training?
Resuable and quality material?
41
Wednesday, July 24, 13
All these standard workflows are great. Unfortunately, people are creative. Or put in a more positive light, they tend to agree with Ewan’s statement.
That means lots and lots of methods development.
51. How to find training
material that
doesn’t suck?
How do I know that this slideset
was well received?
Who likes it and why?
42
Wednesday, July 24, 13
Developing courseware is often performed using existing material in a completely ad hoc manner.
54. Digital Object
Identifier
DOI:.....
Not just for Publications any more...
Provenance
Citability
44
Wednesday, July 24, 13
what is micropublication could be enhanced to include course materials?
55. Accreditation drives quality - GOBLET
Accessible
Peer reviewed
Informed
Preprint > Rating > Leaderboard >Selection for publication > online
publication with citation
45
Wednesday, July 24, 13
GOBLET (global organisation for bioinformatics learning education and training) is considering such a model
56. How to train at scale but retain
effectiveness?
Flip using online
Generating collateral (the big one)
Developing curriculum
The trainee salon
100 > 10 > 1
46
Wednesday, July 24, 13
Our approach to scale: Flip then teach interactively in small groups
57. Who are we teaching
Budding Bioinformaticians
Researchers who need to interpret their data
Members of the public who want to understand their genomes
Medical and Professional community
47
Wednesday, July 24, 13
There is growing diversity of trainees for bioinformatics
58. The reality
100 > 20 hours to prepare a Cloudman Galaxy instance
4 man team to provide onsite training course
advertising and media
self training is difficult to mentor
expectations and levels of expertise
Can we use social media more effectively?
48
Wednesday, July 24, 13
Social media should be used more effectively to encourage/scale/improve/develop teaching delivery and self development.
59. Next...
Central teaching server for Galaxy
Cloudman AWS?
Dark CPU server?
Monetizing HarvardX
Translating Science - do we teach how to blog?
Recognition of effort and impact
49
Wednesday, July 24, 13
The field is evolving in hand with the technologies
60. Nagging questions
Are we being effective?
How can we translate to the public?
Commodotise training?
50
Wednesday, July 24, 13
Given all the work and huge number of sequences shouldn’t we be able to do better?
61. Looking for a visionary
Online competition for a professional to provide training environment for Harvard
researchers
Winner will provide the best plan, sample course outline and materials and the
most compelling vision!
Apply within.
whide@hsph.harvard.edu
51
Wednesday, July 24, 13
Looking for a new set of hands...