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Mike Chelen

Portal:Gene Wiki - Wikipedia, the free encyclopedia - 0 views

en.wikipedia.org/...Portal:Gene_Wiki

genetics wiki wikipedia gene science biology

shared by Mike Chelen on 29 Jan 09 - Cached
  • Mike Chelen on 29 Jan 09
     
    Welcome to the Gene Wiki portal. This portal is dedicated to the goal of applying community intelligence to the annotation of gene and protein function. The Gene Wiki is an informal collection of pages on human genes and proteins, and this effort to develop these pages is tightly coordinated with the Molecular and Cellular Biology Wikiproject. Our specific aims are summarized as follows: * To provide a well written and informative Wikipedia article for every notable human gene * To invite participation by interested lay editors, students, professionals, and academics from around the world * To integrate Gene Wiki articles with existing Wikipedia content through the use of internal wiki links increasing the value of both Please browse around the Gene Wiki, make an edit to your favorite gene page, and feel free to ask questions!
Mike Chelen

http://einrad.eu/stuff/wikipedia-iphone - 0 views

einrad.eu/wikipedia-iphone

wikipedia iphone

shared by Mike Chelen on 23 Jan 09 - Cached
  • Mike Chelen on 23 Jan 09
     
    # WARNING: USE AT YOUR OWN RISK! # It is recommended to use this script as a guide # # This is tested on a Ubuntu 8.10 Live Session # get it at http://www.ubuntu.com/getubuntu/download # # To run this script, paste the following line in a terminal: # wget http://einrad.eu/stuff/wikipedia-iphone; sh wikipedia-iphone # (you need an internet connection) # # if everything works, download the latest dump in your language # and rerun the last lines starting at the process command # hint: change the lang-variable # # Last change: 20 Nov 2008 # contact: felix - beerleader - net
Mike Chelen

Science 2.0 - introduction and perspectives for Poland « Freelancing science - 0 views

freelancingscience.com/...on-and-perspectives-for-poland

science2.0 elearning eresearch

shared by Mike Chelen on 20 May 09 - Cached
  • transcript of Science 2.0 based on a presentation I gave on conference on open science organized in Warsaw earlier this month
  • prepared for mixed audience and focused on perspectives for Poland
  • new forms of communication between scientists
  • ...44 more annotations...
  • research become meaningful only after confronting results with the scientific community
  • peer-reviewed publication is the best communication channel we had so far
  • new communication channels complement peer-reviewed publication
  • two important attributes in which they differ from traditional models: openness and communication time
  • increased openness and shorter communication time happens already in publishing industry (via Open Access movement and experiments with alternative/shorter ways of peer-review)
  • say few words about experiments that go little or quite a lot beyond publication
  • My Experiment as an example of an important step towards openness
  • least radical idea you can find in modern Science 2.0 world
  • virtual research environment
  • focus is put on sharing scientific workflows
  • use case
  • diagram of the “methods” sections from experimental (including bioinformatics analyses) publications
  • make it easier for others to understand what we did
  • can open towards other scientists we can also open towards non-experts
  • people from all over the world compete in improving structural models of proteins
  • helps in improving protein structure prediction software and in understanding protein folding
  • combine teaching and data annotation
  • metagenome sequences in first case and chemistry spectra in the second
  • interactive visualizations of chemical structures, genomes, proteins or multidimensional data
  • communicate some difficult concepts faster
  • new approaches in conference reporting
  • report in real time from the conference
  • followed by a number of people, including even the ones that were already on the conference
  • “open notebook science” which means conducting research using publicly available, immediately updated laboratory notebook
  • The reason I did a model for Cameron’s grant was that I subscribed to his feed before
  • I didn’t subscribe to Cameron because I knew his professional profile
  • I read his blog, I commented on it and he commented on mine, etc.
  • participation in online communities
  • important part of Science 2.0 is the fact that it has human face
  • PhDs about the same time
  • first was from a major Polish institute, the second from a major European one
  • what a head of a lab both would apply to will see
  • gap we must fill, this is between current research and lectures we give today
  • access to real-time scientific conversation
  • follow current research and decide what is important to learn
  • synthetic biology
  • not all universities in world have synthetic biology courses
  • didn’t stop these students, and they plan to participate in IGEM again
  • not only scientists – there are librarians, science communicators, editors from scientific journals, people working in biotech industry
  • community of life scientists
  • even people without direct connection to science
  • diverse skills and background
  • online conference
  • interact with them and to learn from them
Mike Chelen

Wikipedia:WikiProject NIH - Wikipedia, the free encyclopedia - 0 views

en.wikipedia.org/...Wikipedia:WikiProject_NIH

wiki nih research science wikipedia

shared by Mike Chelen on 29 Jan 09 - Cached
  • Mike Chelen on 29 Jan 09
     
    Welcome to the NIH WikiProject, a collaboration area and group of editors dedicated to improving Wikipedia's coverage of National Institutes of Health. This is a new WikiProject, so please join!! (For more information on WikiProjects, please see Wikipedia:WikiProject and the Guide to WikiProjects). Goals * Improve Wikipedia's current coverage of the NIH and deepen the coverage with more pages. Scope * Cover all of the Institutes all the way down to individual laboratories/units.
Mike Chelen

Qualifying Online Information Resources for Chemists | SciVee - 0 views

scivee.tv/9267

shared by Mike Chelen on 11 Dec 08 - Cached
  • Mike Chelen on 11 Dec 08
     
    his meeting was about "Making the Web Work for Science and the Impact of e-Science and the Cyberinfrastructure." I provided an overview of how access to information has changed over the past 20 years for me. I talked about the challenges for publishers serving the chemistry community and how their business models are being challenged and how I empathize with the struggle to figure out how to deal with it. I talked about quality and how care must be taken when using information online. We are ALL challenged with errors - whether you consider PubChem, ChemSpider, Wikipedia or any of the other online databases they all have errors - how do you find them? Some of them are obvious and I pointed to obvious examples in the talk. I hoped to educate the attendees in regards to the value of InChI which, while not a perfect fit yet, is a great start to structure-based communication of chemistry. I publicly blessed the efforts of publishers such as the RSC and Nature Publishing group for the efforts they are making to support InChI and improve the quality of document presentation online. I blessed CAS as a treasure trove of information and the gold standard of curated chemistry. We need them all to be successful for the sake of our science. The challenge is how to fit into the ongoing proliferation of free access to information without modifying the business models.
Mike Chelen

WikiGenes - A wiki for the life sciences where authorship matters. - 0 views

www.wikigenes.org/..._where_authorship_matters.html

open science wiki genetics

shared by Mike Chelen on 22 Nov 08 - Cached
  • Mike Chelen on 22 Nov 08
     
    WikiGenes is the first wiki system to combine the collaborative and largely altruistic possibilities of wikis with explicit authorship. In view of the extraordinary success of Wikipedia there remains no doubt about the potential of collaborative publishing, yet its adoption in science has been limited. Here I discuss a dynamic collaborative knowledge base for the life sciences that provides authors with due credit and that can evolve via continual revision and traditional peer review into a rigorous scientific
Mike Chelen

Science in the open » A breakthrough on data licensing for public science? - 0 views

blog.openwetware.org/...a-licensing-for-public-science

open public science data license

shared by Mike Chelen on 15 May 09 - Cached
  • Peter Murray-Rust and others at the Unilever Centre for Molecular Informatics at Cambridge
  • conversation we had over lunch with Peter, Jim Downing, Nico Adams, Nick Day and Rufus Pollock
  • appropriate way to license published scientific data
  • ...27 more annotations...
  • value of share-alike or copyleft provisions of GPL and similar licenses
  • spreading the message and use of Open Content
  • prevent “freeloaders” from being able to use Open material and not contribute back to the open community
  • presumption in this view is that a license is a good, or at least acceptable, way of achieving both these goals
  • allow people the freedom to address their concerns through copyleft approaches
  • Rufus
  • concerned more centrally with enabling re-use and re-purposing of data as far as is possible
  • make it easy for researchers to deliver on their obligations
  • worried by the potential for licensing to make it harder to re-use and re-mix disparate sets of data and content into new digital objects
  • “license”, will have scientists running screaming in the opposite direction
  • we focused on what we could agree on
  • common position statement
  • area of best practice for the publication of data that arises from public science
  • there is a window of opportunity to influence funder positions
  • data sharing policies
  • “following best practice”
  • don’t tend to be concerned about freeloading
  • providing clear guidance and tools
  • if it is widely accepted by their research communities
  • “best practice is X”
  • enable re-use and re-purposing of that data
  • share-alike approaches as a community expectation
  • Explicit statements of the status of data are required and we need effective technical and legal infrastructure to make this easy for researchers.
  • “Where a decision has been taken to publish data deriving from public science research, best practice to enable the re-use and re-purposing of that data, is to place it explicitly in the public domain via {one of a small set of protocols e.g. cc0 or PDDL}.”
  • focuses purely on what should be done once a decision to publish has been made
  • data generated by public science
  • describing this as best practice it also allows deviations that may, for whatever reason, be justified by specific people in specific circumstances
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