Science Library Pad

IATUL 2007 presentations and papers now online

Proceedings

By author

By theme

International Association of Technological University Libraries (IATUL) 28th Annual Conference, 2007- "Global Access to Science: Scientific Publishing for the Future"

See my blogging of the conference in category IATUL2007.

D-Lib report on IATUL 2007

Global Access to Science- Scientific Publishing for the Future: A Report of IATUL 2007 Conference Held at KTH, the Royal Institute of Technology, Sweden, June 11 - 14, 2007
Maitrayee Ghosh, Indian Institute of Technology; and Manik Mandal, National Institute of Technology, Durgapur, India
doi:10.1045/september2007-ghosh

IATUL 2007 stressed the importance of global collaboration in exchanging ideas and project experiences through various channels of communication, in areas ranging from information literacy, open access to information, scholarly communication, institutional repositories, outreach services, faculty and library collaboration in various research programs, pricing issues with publishers and – last but not least – the crucial information needs of users within the participants' institutions.

Science-specific Search - Scirus and beyond - Joris van Rossum - June 14 - IATUL 2007

Joris van Rossum
Scirus, Amsterdam, The Netherlands

Science-specific Search: Bridging the gap in dissemination of and access to information

http://www.scirus.com/

Scirus is the free science search engine
he previously worked as a senior product manager at Scopus
(the pay science search engine http://www.scopus.com/ )

Content [Overview]
* How has content provision changed?
* How has information retrieval changed?
* Future trends

Internet has made journal publishing just one of many options for scientific content communication

why is there still journal publishing?
* stamp of authority
* versioning challenge - journal has version of record
* archiving - publishers ensure the article will always be available online

Increasing amount of content available online
* high amount of published content
- Scopus has 30 million abstracts
- ScienceDirect has 8 million articles
* amount of scholarly web content even higher
- Scirus currently indexes over 400 million scholarly web pages
(feel they need to add another 400 million on top of that in order to be complete at this moment)
* size of general web has exploded
- as of August 2005 Yahoo indexed over 19 billion pages
- Google says it indexes 3x more than that

Different content discovery methods
* browsing
* linking
* alerting
* searching
* user collaboration/sharing (potentially very strong, even replacing searching)

based on analysis from ScienceDirect usage logs

Browsing
* used to keep abreast of latest developmetns in subject area
* 31% of all full text article use on ScienceDirect is a result of journal browsing
* users that start this way download on average 1.9 articles

Linking
* very effective content discovery method
* publishers are collaborating through CrossRef to ensure correct reference linking
* 8% of all full text article use on ScienceDirect comes from reference linking
- Same is expect from 'cited-by' links
* next to reference and cited-by links in official literature there is
- web ref and cite-by
- patent ref and cite-by
- clustering
- author linking

citation paradigm applies beyond the official literature

Alerting
* journal issue [TOC] (RSS)
* top articles
* citation
* search

2-4% of downloads come from alerting

Search is the main driver of journal article use
* exponential growth of PubMed and ScienceDirect searches
- growth rates between 20-110% from 2001-2005
* search has overtaken browsing
[missed rest of slide]

search is important because it yields more than just journal results

* general web search (Google) often 1st choice for scientists (66%) and physicians (55%)

* subject-specific search platforms remain important
- avg. # of full text article downloads per sesson from PubMed is 3, from general search is 1.5

screenshot of Scirus, specialised science features

role of librarians in improving integration:
- search on library homepage, OpenURL (Scirus Library Partners)

*** User Collaboration and Sharing - The Future of Information Sharing ***

Combining browsing, linking, alerting and search in a community and network-driven system

... Scirus will launch a new community service in a couple weeks

Q: researchers aren't always searching for articles - in computer science we are interested in
aggregates e.g. projects and research programs
A: the new service will offer topic-based collected search and resources relevant to a particular area

Q (Jens): journal publishing enduring... authority good - versions ? - archival not true!
A:

archiving ScienceDirect - The Hague - for free - even if Elsevier disappears, info will still be available

why is Elsevier concerned about archiving
- helps provide confidence to move everyone to e-only
- gives authors confidence

IATUL 2007 badge colour decoder

grey - speaker
green - accompanying person?
red - regular attendee
blue - tech/conference support
yellow - vendor (DANGER! DANGER! :)

Library SOA for catalogues, escience and more - Richard Akerman - June 12 - IATUL 2007

I have posted my presentation to SlideShare

http://www.slideshare.net/scilib/library-serviceoriented-architecture-to-enhance-access-to-science

and you can also download the PowerPoint from there (thanks to Amazon S3 storage via SlideShare).

All of the bookmarks in the presentation along with some supplementary links are available at

http://www.connotea.org/user/scilib/tag/iatul2007akerman

I was pleased with the response to my presentation.  There was interest from people in many different roles and organisations, and I am becoming increasingly convinced that at least for national library scale IT projects, SOA is gaining increasing traction.

I will use this posting as a starting point for discussions and any further ideas I may think to add.

UPDATE 2007-09-06: My paper is available in E-LIS.

biomed lit mining - Dr. Lars Juhl Jensen - June 12 - IATUL 2007

Dr. Lars Juhl Jensen
EMBL-Heidelberg, Heidelberg, Germany

Biomedical literature mining (and why we really need Open Access)

UPDATE: Presentation (PowerPoint) now online.  ENDUPDATE

MEDLINE
17 million citations

too much to read -> literature mining (get a computer to read them)

but to do that, you need access to the papers

discipline: info retrieval - finding the papers
ad hoc retrieval

MEDLINE - abstracts only
but would like to run on full text

next discipline: entity recognition

need synonyms / mapping lists - manual
plus orthographic variation

ihop
http://www.ihop-net.org/UniPub/iHOP/

discipline: information extraction

formalizing the facts - turning text into databases

Jensen et al Nature Reviews Genetics 2006

new discoveries - text mining

http://arrowsmith.psych.uic.edu/arrowsmith_uic/

mining temporal trends

timeline of buzzwords

integration of text and data

http://string.embl.de/

genotype to phenotype

Korbel et al PLoS Biology 2005 heatmap

UPDATE: I'm almost certain he's referencing

Korbel JO, Doerks T, Jensen LJ, Perez-Iratxeta C, Kaczanowski S, et al. (2005) Systematic Association of Genes to Phenotypes by Genome and Literature Mining. PLoS Biol 3(5): e134 doi:10.1371/journal.pbio.0030134

ENDUPDATE

where are we now?

the tools are there... we need the text

Q: how are researchers using tools?
A: unfortunately many of them aren't aware the tools exist

Q: copyright obstacles - collections of abstracts copyrighted (protection of database) - is this a problem?
full text - could authors prepare a second abstract for literature mining specifically?
A: extraction of facts... isn't really copyright violation
rather than having second abstract, just deposit semantic information and data directly into a database

Q: how does this relate to Biomart?
http://www.biomart.org/
A: they are trying to glue together different data sources

chemistry data in IRs - Project SPECTRa - Peter Morgan - June 12 - IATUL 2007

Peter Morgan
University of Cambridge/Imperial College London, Cambridge CB3 9DR, UK

Facilitating the disposit of experimental chemistry data in institutional repositories: Project SPECTRa

http://www.lib.cam.ac.uk/spectra/

* Research data and Open Access
* Institutional context

Research Data and Open Access
* 855 repositories - only 6% contain data
* machine-understandable data is needed for
- eScience
- etc.

* Open Data is not the same as OA
* OA licenses often don't address reuse of data

University of Cambridge
* few OA research papers
* large collection ( >175,000 files) of chemistry data files
* chemistry department (Peter Murray-Rust) keen to explore potential of repository

SPECTRa project
* 3 project staff plus librarians & chemists
* end March 2007

aims
* investigate needs in capturing and re-using (chemistry research) data, as well as actually capturing

Survey results
* much data not stored electronically
* many file formats (mainly proprietary)
* ignorance of IRs
* need to restrict access to data

* publication of chemical structures must be embargoed

separate repositories - departmental level ->
institutional repository to includ co-ordinated network of repositories

Conclusions
- there is an optimum moment for data capture
- researchers may not be willing to change their workflows
- data embargo necessary
- need both automated deposit and subsequent human editing
- used DPSpace handles rather than DOIs, but there were handle management issues

* need for researcher education and legal guidance on data sharing and reuse

e-Research infrastructures and scientific communication - Ralph Schroeder - June 12 - IATUL 2007

Ralph Schroeder
Oxford Internet Institute, Oxford, UK
http://www.oii.ox.ac.uk/

e-Research infrastructures and scientific communication

Oxford e-Social Science Project

* Emergent Patterns in Scientific and Scholarly Communication

Background
* networks of tools and data shared by communities of researchers

Is e-Science a niche, or is it the new science (the new system of knowledge production).

Emerging Patterns
* Recognition of data as valid scientific outputs
* Fragmented communication system in relation nto e-Research
* Alternative models of dissemination by-pass traditional models

Components of Infrastructures and e-Research
* Policy
* Organizational and technical forces
* Everyday practices of researchers
* Openness
- various parts of the digital infrastructure ... should be able to interrelate in a flexible
and seamless way
- difficult to achieve in practice
- forms of openness still fluid

traditional distinction between tools and resources being blurred

Developing Countries
* levels of participation
- network
- scientific communication

DCs mostly not at cutting edge in uses of truly advanced networks

OA and IRs provide a level of participation for DCs in scientific communication

Challenge: consideration of how the developing world may be kept in line with e-Research
developments

Conclusions
* e-Research systems add a layer of complexity
* Making open systems extend to DCs involves a range of issues

open context for small-scale field science data - Eric Kansa - June 11 - IATUL 2007

Eric Kansa
Alexandria Archive Inst, Univ of Santa Clara, Berkeley, CA, USA

An open context for small-scale field science data

Open Context

http://www.opencontext.org/

[will move to UCBerkley School of Information - Services]

* small/field sciences
- lack of standards

* challenges
- data preservation
- data access and reuse
- data integration and synthesis

materials collections & field research data -> Open Context -> dissemination (common services)

complex querying
* data from multiple projects can be queried together

citation information with stable URL

COinS microformat - readble by Zotero

working on tools to allow individuals to publish their own material through Open Context

currently using version of AchaeoML -> so data sets require mapping to this schema

features
* can tag items
* can tag the results of queries
* support ping-backs (trackbacks)

folksonomies are easy to use and effective

Future Directions
- distributed architecture / web services [with UC Berkeley]
* Your collaboration

system for easy access to sci info using DOIs - Jan Brase - June 11 - IATUL 2007

Jan Brase
German National Library of Science and Technology (TIB), Hannover, Germany

A system for easy access to scientific information using DOIs

Motivation
* publications are based on scientific data sets that cannot be accessed
* collecting data is not honoured with scientific reputation

We need
* a persistent identifier
* enabling citations of data

registration
* URL where data can be accessed, plus XML file of biblio metadata including info
needed for citation of electronic media (ISO 690-2)

TIB assigns a DOI

More Scientific Content with DOIs
* radiology case studies
* Eurographics grey literature
* eBank from UK Office for Library Networking - DOIs for crystal structures
* CERN theses
* final reports of projects funded by the German government

Scope
* TIB will register primary data worldwide from an STM background
* plus any scitech content that is a result of community funded research in Europe
* Depending on number of DOIs the price per DOI is from 0.5 to 0.005 euros

DOI registration could be added into scientific workflow, or publishing workflow

Status
* the first 500,000 objects have been registered
* some are in the current catalogue
* each registered object will be accessed via a new catalogue at the library

Future
* share the responsibility
* worldwide union of local technical libraries to establish a global non-commercial scientific
DOI registration agency
* join us

Q: relationship to VASCODA?
http://www.vascoda.de/
A: Not yet

Q: Why DOIs and not URLs
A: URL might go away, DOI will always resolve to something (there is a global DOI resolver)

A model of scientific communication - Bo-Christer Björk - June 11 - IATUL 2007

I found the following presentation very interesting, it presents an attempt to completely model all aspects of scientific communication.  Very ambitious and also a useful step in getting us all to a common vocabulary and understanding.  I think there are still many challenges, including getting us all onto a common modelling standard, and modelling library activities beyond just the scholarly communication parts.  CISTI has done a lot of work in this area, and I will be talking about some of it tomorrow (June 12).

Bo-Christer Björk
Hanken, Svenska handelshögskolan, Helsinki, Finland

A model of scientific communication of a global distributed information system

http://www.sciencemodel.net/

http://informationr.net/ir/12-2/paper307.html

[modeling scientific communication IT systems]

Two ways for complex info systems to develop
* top down, planned
* bottom up, independently

scientific communication is a good example of bottom up

common items in scientific communication
- article, author, journal etc.

main uses of info in sci com
* communicating research results
* supporting funders and university administrators in deciding about grants and appointments

Backgorund of the SCLC model
* developed since 2000
* SciX project (EC)
* OACS project (Academy of Finland)

Purpose

* this model is to act as a roadmap for policy discussions

Scope
* whole scientific communication value chain
* focus is publishing, indexing, retrieval and reading of traditional peer reviewed journal articles

Model hierarchy
* 33 diagrams
* 113 activities

Conclusions
* this model can be useful in structuring comparisons between different business models
* it can also help in positioning different OA initiatives

Comment from the audience: (library whose name I didn't catch) found it useful to use and extend the models

Q (me): Can you assign a dollar value to each activity and do automatic calculations?
A: Yes but you need empirical data.

OA and repositories : beyond green and gold - Jens Vigen - June 11 - IATUL 2007

Jens Vigen, Library Director
CERN, Geneva, Switzerland

Open Access and repositories : beyond green and gold

both subject repositories and institutional repositories

* subject repositories - used by researchers
* institutional repositories - store and track organisation's research output

constructing new repository system
applied for grant for 50 person years over the next 4 years

standing on digital shoulders

* more than 15 years after the invention of the Web, scientific information remains an electronic clone
of the paper era
* specialized libraries can play a pivotal role in preparing the route for their communities
towards eScience

Scientific information provision in the era of eScience

* full text and data mining
* detection of relations between articles
* treatment of large datasets for satistical and citation analyses
* identification of popular and influential articles and authors with complementary ranking criteria:
alternative metrics to ISI
* access to numerical info from figures and tables within articles
* offer integrated access to primary scientific data

[mentions some interesting work at LANL on mapping relationships between articles]

[belives the EU 7th framework will produce a lot of results in the above areas]

HEP (high energy physics)

* infrastructure for repository of scientific information
* entire corpus of HEP information in one place
* current priority
- empower the repository with new technology and conent: enabling researchs to explore information
matching the emerging expectations of the eScience era

survey to see if they are meeting user needs

results will be published as a paper

systems used

3% publisher portals
11% google

86% community services
- 28% subject repositories
- 58% specialised libraries

tagcloud (tagcrowd)

important features of an information system
* 93% depth of coverage
* 91% quality of content
* 94% access to full text
* 93% search accuracy

What changes do (surveyed responders) expect?

* seamless access to articles via portal
* improved full-text search
* conference presentations indexed and link to articles
* publication of data
* peer-review overlaid on subject repositories
* smarter search tools

dreams

* see research in context, follow a research thread
* ... more

VIsion
* build a complete HEP information system
* with full-text, data-mining etc.
* demonstrate and deploy Web 2.0 applications in the domain of sciences

Conclusions
...
* librarians have the opportunity to play a key role in the era of eScience
* express interest if you would like to join

Comment: engineering is not as advanced in information use

OA - Reaching the Masses - Dr. Håkan Carlsson - June 11 - IATUL 2007

Dr. Håkan Carlsson
Lund University, Sweden

Open Access - Reaching the Masses

OA
* increased visibility, usability, impact
* sounder business model
* full-text mining

Two Important Questions
* what is the response of the university libraries
- is it a researcher question, not a library question?
* how is the work best organised

reference to CURL/RIN report on Researcher's Use of Academic Libraries and their Services

Library Services for Research
* Scientific communication support with a focus on publication activities is a promising way to
extend services
* The library is not there to promote OA, but to support the whole publication process, in which
OA is an important part

OA at Lund University
2007 Mandatory *registration* of all university publications

library needs to assess needed competencies and provide services accordingly

Infrastructure
* new custom software - LUR (stable, combines registration/archiving)
* journal hosting - Open Journal Systems
* financial support for publication fees?

New Service
* help the researcher choose the appropriate journals to publish in, and help them with getting
published
- give information on all aspects of journals

Journal Info

http://jinfo.lub.lu.se/

IATUL 2007 blogging, Twitter

As you can see I'm doing some blogging about the sessions.

As well, although I have to admit I don't quite get Twitter (how much awareness monitoring can people possibly want?), I am twittering

http://twitter.com/scilib

IATUL 2007 - June 11 - Dr. Rüdiger Voss - Open Access - SCOAP3

UPDATE 2007-06-14: I invite you to read some additional background information about these notes.  ENDUPDATE

Dr. Rüdiger Voss
Physics Dep, CERN, Geneva, Switzerland

Open Access Publishing in Particle Physics

convert entire discipline to open access journal publishing

approximately 10,000 scientists worldwide

5016 articles published in 2005 in peer-reviewed journals
83% of all papers in 6 journals
87% of all papers published by 4 different publishers

CERN Convention (1953) is an early OA manifesto

embrace OA movement (arXiv.org)

* today particle physics is almost entirely greeen
* without mandates, without debate

peer-reviewed journals remain important as version-of-record archives and as
key instruments of merit recognition and career promotion

OA landscape in 2007

* most particle physics journals offer OA options
- hybrid model, authors buy OA to articles
- reluctant take-up by authors

* gold OA to journals is there, but variety of options bewildering

in 2005: 72.6% NO OA option
in 2007: 86.8% offer OA option

time is ripe for a full transition to OA

OA issues
* grant universal access to peer-reviewed results of publically funded research
* in a green environment authors benefit for peer review and journal prestige
* bring subscription costs under control
* raise researcher awareness of economics of scientific publishing
* inject competition into scientific publishing by linking price to quality
* stabilize the diversity and future of journals which have served particle physics well - but leave
room for new players

SCOAP3 model
http://www.cern.ch/oa/Scoap3WPReport.pdf

in a nutshell
* global consortium of funding agencies and libraries to convert all research journals important
to particle physics to open access
- funded through redirect of subscription budgets
* OA implemented through contracts between SCOAP3 and publishers
- full sponsoring of core journals
- partial sponder of broader topic journals
* SCOAP3 sponsors e-journals only; publishers free to charge readers for print and other
premium services

* estimated annual budget: 10 million euros
* contributions on a "fair share" basis by nationality (affiliation) of articles/authors

How to put it together?

LHC is a much bigger project, 40 funding agencies, 550 million $

Benefits
* online journals free to read for anybody
* preserve high-quality peer review process
* generate medium and long-term savings for libraries and funding agencies
* free to read and to publish for developing countries

SCOAP3 Status
* report distributed
* more work needed

* potential funding parters to be invited soon to sign Expressions of Interest
* once partners commit to sizeable fraction of budget, invite publishers to tender in autumn

* Goal: have SCOAP3 operational for the first LHC papers

IATUL 2007 - June 11 - Tom Cochrane - Global access to science – meeting the revolution

UPDATE 2007-06-14: I invite you to read some additional background information about these notes.  ENDUPDATE

Tom Cochrane, Deputy Vice-Chancellor
Queensland University of Technology, Brisbane, Australia

see Microsoft 2020 report
http://research.microsoft.com/towards2020science/background_overview.htm

Global access to science – meeting the revolution

2. open access
3. e-research/e-science/cyberinfrastructure

the new science will challenge university IT and library capabilities in unprecendented ways

paper used to be a challenge

beware short term hype, which is underpinned by a failure to understand the long-term impact

shift to electronic full text

Institutional Repository

QUT has mandated research deposit

materials that could be commercialised are excluded from the repository

mostly post-prints being deposited

QUT shows top 10 authors / top 10 papers

focus on collecting research

Rise of Mandates for Open Access

Gold or Green

Gold - pay publisher
Green - more controlled by researcher

changing scientific communication
journal title = research quality?

OAK Law Project
http://www.oaklaw.qut.edu.au/

Legal Framework for e-Research Conference 2007

*** Semantic loss

limitations of publishing

"Those who focus on open access, far from being radical, are not being nearly radical enough"
- Timo Hannay

Responding to the Data Deluge

** NCRIS Platforms for Collaboration

? Investment Plan

Challenges
* understand changing scholarly publishing ("keep up")
* readiness to lead in enhancing accessibility
* clarify role of repositories
* repudiate view that problems are too big
* knowledge of changes to science
* lead, or share the lead, in dealing with the data deluge

Q: researchers overwhelmed by time needed to referree articles
A: true but not a new problem
some disciplines spreading the load by using automated systems for blind referreeing

2007 IATUL and ELPUB programmes - open access and beyond

The ELPUB 2007 and IATUL 2007 programmes are up.  Both will feature topics in the areas of open access and scholarly communication.  It's interesting to me how much the technology and interests of the scholarly publishing community and the academic library community seem to be converging.

At ELPUB 2007, CISTI's Judy Best will be presenting

Challenges in the Selection, Design and Implementation of an Online Submission and Peer Review System for STM Journals

presenting library soa at IATUL 2007

I am pleased to announce that I will be presenting my paper "Library Service-Oriented Architecture to Enhance Access to Science" at IATUL 2007, my session is tentatively scheduled for

Tuesday June 12th 2007 at 10 am
The presentation will be about 20 minutes plus 5 minutes for questions.

UPDATE 2007-06-12: The presentation has now been completed and is available online.  ENDUPDATE

My paper is a brief summary of CISTI's EA and SOA success, based on the efforts of the rest of the architecture and application development teams.  I intend it both as a demonstration of what is possible, as well as a discussion starter, to help other libraries move beyond basic theoretical frameworks to start building a richer network of library machine-to-machine data services that we can all use for applications, websites, mashups, and whatever is coming next.

IATUL 2007 - Google Earth

I have done a Google Earth KMZ of the IATUL 2007 hotel options and venue.

Download IATUL2007.kmz

UPDATE 2007-06-09: I have done a new version that adds the conference halls and the central train station.

Download IATUL2007v2.kmz

International Technology University Libraries Conference 2007

The site for IATUL 2007 is up

28th International Association of Technology University Libraries conference 2007
June 11-14, 2007
Stockholm, Sweden

The conference's theme is Global Access to Science - Scientific Publishing for the Future.

No CFP yet.  UPDATE 2007-03-20: CFP has closed. ENDUPDATE
No RSS feed :(

I will be using tag IATUL2007 for this conference.