Ncbo webinar force11

Force11: the Future of Research Communica4ons and eScholarship

Anita de Waard Disrup4ve Technologies Director,

Elsevier Labs, Burlington, VT Maryann E. Martone

University of California, San Diego

Outline:

•  Background: distribu4on of data, tools and ideas => we need social change!

•  Past: BtPDF, Dagstuhl •  Present: Sloan grant, force11.org •  Future: Plans, ideas – input?

Mo4va4on: the well-‐known issue of data overload…

4

More data by the minute.

1

Home(64%)

Search(36%)

People manager(23%)

Employment law(15%)

Search (35%)

Policies & Docs.(16%)

Emp. law Ref. Man. (11%)

Search (48%)

Pols. and docs. (11%)

Search (53%)

Pols. and docs.(15%)

Search (25%)

Pols. and doc. (44%) Search (26%)


Pols. And docs. (53%)

Search (15%)Search (37%)


Home (38%)

Search (19%)

Policies (13%)

Emp. law ref. man. (43%)

Search (25%)

Search (28%)


Employment law. (8%)


Search (35%)


Emp. Law (82%)

Search (9%)

Employment law (86%)

Statutory rates (4%)



Statutory rates (37%)


Home (8%)

Policies (8%)

Search (35%)


Pols. and doc.(9%)

Legal guidance (8%)

Search (48%)

Employment law (9%)


Search (28%)



Legal guidance (28%)

Search (26%)


Pols. and docs. (32%) Employment law (14%)

Time:8.8minAge : 33.6Bounce : 1% N= 25,423

Time:1.14minAge : 1Bounce : 0% N= 16

What’s new(9%)

Time:2.2 minAge : 7.9Bounce : 1.8% N= 115,498

Time:0.4minAge : 8.5Bounce : 6.3% N= 10,562

What’s new (16%)


Time:3.9 minAge : 27.7Bounce : 0.7% N= 2681

Time:31.9minAge : 11.6Bounce : 1.2% N= 1815



Time:1.6 minAge : 4Bounce : 1.4% N= 141

Time:1.7minAge : 29.3Bounce : 1% N= 826


Time:2.4minAge : 7.3Bounce : 2.1% N= 96 Time:1.8min

Age : 5.4Bounce : 0% N= 58


Time:2.8minAge : 40Bounce : 0% N= 57

What’s new (28%)


Legal guidance (13%)Time:1.8 minAge : 9.02Bounce : 5.2% N= 910

What’s new (36%)

Legal reports (11%)

Time:2.1 minAge : 10.2Bounce : 1.3 % N= 230What’s new (20%)

Legal reports (33%)

Search (16%)

Time:1.1 minAge : 8.9Bounce : 1 % N= 98

What’s new (13%)

Search (16%)



Time:1.1 minAge : 9.3Bounce : 0.8 % N= 877

What’s new (17%)

Employment law (58%)Time:0.7minAge : 9.2Bounce : 4.7 % N= 85

What’s new (13%)Search (16%)Legal guidance (24%)Time:0.8min

Age : 8.8Bounce : 3.4 % N= 174

Search (31%)Pols. and doc.(17%)


Time:1.7minAge : 31.7Bounce : 1.5 % N= 136

Legal reports (16%)

What’s new (14%)Legal guidance (11%)

Time:2minAge : 8.8Bounce :1% N= 104

Time:13.7minAge : 35.4Bounce : 2% N= 3,561 Time:2min

Age : 20Bounce : 1% N= 523Time:1.9min

Age : 32.2Bounce : 0% N= 620 Time:1.6 min

Age : 22.2Bounce : 0.8% N= 761Time:1.4min

Age : 11.2Bounce : 1.6% N= 497

Time:2.36 minAge : 33.5Bounce : 0.7% N= 427


Even plants make data! •  Internet of things: we can interact with ‘objects that blog’ or ‘Blogjects’, that track where they are and where they’ve been;

•  have histories of their encounters and experiences have agency

•  have a voice on the social web

Larry Smarr makes lots of data: •  He wears:

•  A Fitbit to count his every step •  A Zeo to track his sleep pa]erns •  A Polar WearLink that lets him regulate his

maximum heart rate during exercise •  23andMe analyzed his DNA for disease suscep4bility.

•  Your Future Health analyzed blood and stool samples for 100 biomarkers: •  At one point, C-‐reac4ve protein stood out as higher than normal. •  A blood test showed that his CRP had climbed to 14.5 during the a]ack. •  He took an4bio4cs, the symptoms resolved, and his CRP dropped to 4.9—

but that was s4ll unusually high. •  Lactoferrin, too, rose several 4mes to sky-‐high levels—200, whereas the

normal count is less than 7.3 – and in tandem with CRP •  Smarr now thinks his diver4culi4s a]ack was actually Crohn's disease – and

his gastroenterologist (reluctantly) agreed.

Clearity Founda4on: A transla4onal medicine and public service founda4on for: • Providing doctors access to molecular profiling for their ovarian cancer pa4ents • Providing doctors and pa4ents clinical trial op4ons informed by individual tumor biology • Providing financial support for the profiling work for pa4ents – Oprah approved!

As do lots of other ‘Quan4fied Selfers’:

•  It knows where you are •  And who you talked to •  And what you bought •  And how much you paid.. •  And whether you need another pair of shoes •  And when and where you can get them…

uses data

Bri]any Wenger uses this data:

17-‐year old Bri]any Wenger developed a cloud-‐based neural network that is able to seamlessly and accurately assess 3ssue samples for signs/evidence of breast cancer to give more credence to the currently used (less reliable) minimally invasive procedure called Fine Needle Aspirates (FNAs). By looking at nine different input features and comparing them to the training examples, Bri]any’s cloud-‐based neural network can detect malignant breast tumors with an accuracy of 99.11% Because her neural network is deployed in the cloud using Google’s app engine it means it can be accessed from exis3ng medical systems as well as through a web browser or mobile apps.

Winner of the Google Science Fair 2012

Using what is known about interac4ons in fly & yeast, predict new interac4ons with a human protein –

Running over data on the web that he neither created nor knew about!

Mark Wilkinson uses this data: Given a protein P in Species X:

Find proteins similar to P in Species Y

Retrieve interactors in Species Y

Sequence-‐compare Y-‐interactors with Species X

genome

(1) à Keep only those with homologue in

Find proteins similar to P in Species Z

Retrieve interactors in Species Z

Sequence-‐compare Z-‐interactors with (1)

à Puta3ve interactors in Species X

In summary: science is becoming distributed:

Tools

Thoughts

Data

Science is becoming distributed:

Tools

Thoughts

Data

Data is king! •  Data needs to say what it’s about •  Data needs to say where it comes from •  Data needs to know who owns it •  Data needs to be sensi4ve to privacy •  Data needs to know how it’s used


Tools

Thoughts

Data Tools rule! Tools can be made by everyone: Tools are open and free Tools will know where data lives Tools need to know about data: •  Privacy/ownership •  Trustworthiness •  Provenance


Tools

Thoughts

Data

If data and tools are ubiquitous, what ma]ers most are the ques4ons you ask: • What is interes4ng? • What is important? • Who cares?

Calculate, coordinate…

Compile, comment, compare…

6. Run niwy apps over all of this.

Science publishing can be distributed? 1. Add metadata to everything metadata

metadata

metadata

metadata

metadata

5. The reviewer approves (or comments, author revises, etc)

2. Use a workflow tool

4. Invite reviews

Review Edit

Revise

Rats were subjected to two grueling tests (click on fig 2 to see underlying data). These results suggest that the neurological pain pro-‐

3. Write in a shared space

What do we need to get there? •  1. Metadata standards: Standards that allow interoperable

exchange of informa4on on any knowledge item created in a lab, including provenance and privacy/IPR rights

•  2. Tools: Workflow tools that work for all science, are scalable, safe, and user-‐friendly

•  3, 4, 5. Seman4c/Linked Data-‐Centric authoring, annota3on and edi3ng environments that enable interlinked, distributed knowledge crea4on.

•  6. Publishing systems that run as applica3on servers. => Social change:

–  Scien4sts need to realize they should annotate their work –  Libraries change their visions and jobs –  Publishers realize they need to take on new roles

The History of Force11: •  2009/2010:

– Awer Elsevier Grand challenge, clear there was a community interested in discussing the Future of Science Publishing

–  Ini4al plans: mee4ng in Harvard, didn’t end up happening; proposed & accepted Dagstuhl workshop

•  2011: – Beyond the PDF was being planned by Phil Bourne – we joined Forces!

– Force11 at Dagstuhl

Research Communica4on

Beyond the PDF Jan 2011 San Diego

Common Goal

Applica:on of emergent technologies to measurably

improve the way that scholarship is conveyed and

comprehended


Ques4ons

•  What approaches to review and assessment can work? What evidence do we have?

•  What tools, systems, and framework are needed to support pre-‐pub review and post-‐pub review?

•  How do we persuade the research community to change aka “It’s a cultural issue…”


Outcome of Beyond the PDF:

•  Community interested in connec4ng •  Topics:

– New formats for the research paper – Tools for crea4ng, (re)viewing, assessing, edi4ng – Connec4ng workflows and data to papers – New metrics for success – New business models?

•  Some discussion; many ini4a4ves-‐ no real coordina4on

•  Forc: how do we take this a step further?

22

Future of Research Communica4ons: Many workshops, papers, conferences, meetings, reports, about innovation in science publishing: • • •

Many great ideas, but still a lack of large-scale change Some arguments: ‘I can’t get funded for that’, or ‘the publishers will never agree to that’ or ‘the reward system is just not set up that way’ or ‘my university/dean/provost doesn’t believe in it’ Here (hopefully) the people you are pointing at are in the room!

FoRCe11 at Dagstuhl

The Manifesto

Core issues of Force11 Manifesto

Next step: Force11 •  Phil Bourne requested and obtained funding for 2012 from the Sloan Founda4on to take this to the next step

•  Goals: – Establish Web pla{orm as site for discussions

– Codevelop proposals for concrete next steps

– Plan next workshop

FORCE11 is distributed! -‐Tools and Resource catalog via the Neuroscience Informa4on Framework -‐Ar4cle database in Mendeley -‐Discussion Forum via Google -‐Blogs courtesy of blog sites and RSS feeds -‐Web site via Drupal -‐Announcements via Twi]er

FORCE11 draws on a wealth of tools -‐ gets our “brand” out there for others to find

h]p://force11.org

We will invent the future... •  Like Larry’s quan4fied self, scien4sts

have ways of exposing their exper4se and products on the web unfiltered

–  Blogs, videos, data sets

•  The web leads to new metrics of impact

–  Connec4vity, social presence –  Altmetrics

garfield.library.upenn.edu/essays/v4p394y1979-‐80.pdf

Beyond the PDF2 •  Planning is underway for the next Beyond the PDF conference (March 19-‐20, 2013, Amsterdam)

•  The FORCE11 challenge project: The Future is Now: – Move the FORCE11 Manifesto beyond the PDF... –  Engage users beyond the evangelical community

•  Give us your use cases!!! •  Beyond the Horizon:

–  Openness is more than open access •  Open courses, Open conferences, Open abstracts

–  New Business models for openness •  Join FORCE11 now (members get first chance to a]end Beyond the PDF2)

Ques4ons!

•  Are we represen4ng the issues discussed in these webinars?

•  If not – what are we missing? •  How to work with other groups be]er (W3C, NCBO, OBO, …?)

•  Aspects that could be emphasized/taken up by Force11?

•  Would you be interested in joining??

Date post:	10-May-2015
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Ncbo webinar force11

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