Helpful and/or Provocative Links for Science 2.0

Useful URLs:

What is Science?

• http://michaelnielsen.org/blog/the-future-of-science-2/
• http://www.openscience.org/blog/?p=312
• http://mloss.org/community/blog/2009/jul/13/replicability-is-not-reproducibility-nor-is-it-goo/
• http://www.benchfly.com/blog/how-to-choose-a-good-scientific-problem/
• http://web.stanford.edu/~vcs/talks/VictoriaStoddenSciFoo2009-2.pdf
• https://opensource.com/resources/open-science
• http://www.nature.com/news/reproducibility-crisis-blame-it-on-the-antibodies-1.17586
• http://phys.org/news/2013-09-science-crisis.html
• http://blogs.biomedcentral.com/on-biology/2015/03/20/is-science-broken-a-reproducibility-crisis/
• http://www.theatlantic.com/health/archive/2015/08/psychology-studies-reliability-reproducability-nosek/402466/
• http://www.sciencemag.org/content/349/6251/aac4716
• http://www.nytimes.com/2015/08/28/science/many-social-science-findings-not-as-strong-as-claimed-study-says.html
• https://osf.io/ezcuj/wiki/home/

Publish or Perish

• https://mydominanthemisphere.wordpress.com/2009/08/14/what-you-might-not-know-about-scientific-journals/
• http://www.pnas.org/content/101/51/17599.full
• http://www.rin.ac.uk/our-work/communicating-and-disseminating-research/communicating-knowledge-how-and-why-researchers-pu
• http://www.biomedcentral.com/about/duplicatepublication
• http://papers.ssrn.com/sol3/papers.cfm?abstract_id=1525667
• http://michaelnielsen.org/blog/is-scientific-publishing-about-to-be-disrupted/
• http://occamstypewriter.org/vwxynot/2012/05/03/scooped-2/
• http://software-carpentry.org/blog/2014/02/open-scoop-challenge.html
• http://pubs.acs.org/doi/full/10.1021/jz502010v
• http://pubs.acs.org/doi/full/10.1021/jz501139d
• http://pubs.acs.org/doi/full/10.1021/jz3014562
• http://pubs.acs.org/doi/full/10.1021/jz4006916
• http://pubs.acs.org/doi/full/10.1021/jz500997e
• http://pubs.acs.org/doi/full/10.1021/cm503928y

Peer review

• https://gettingpublished.wordpress.com/2009/08/30/peer-review-and-alternatives/
• http://post.queensu.ca/~forsdyke/peerrev.htm
• http://arxiv.org/
• http://www.nature.com/neuro/journal/v2/n3/full/nn0399_197.html
• https://pubpeer.com/about
• https://publons.com/
• http://proteinsandwavefunctions.blogspot.dk/2012/04/arxiv-is-for-research-and-journals-are.html

Supporting science

• http://www.tandfonline.com/doi/abs/10.1080/08989620802689821
• http://scienceblogs.com/clock/2009/04/12/why-eliminate-the-peer-review/
• https://www.timeshighereducation.co.uk/news/research-grants-lets-end-this-shared-madness/409090.article
• http://metamodern.com/2009/12/22/more-about-less-opportunity-for-young-scientists/

Scholarly metrics

• https://en.wikipedia.org/wiki/H-index
• http://www.nature.com/nature/journal/v448/n7155/full/448737a.html
• http://scholarlykitchen.sspnet.org/2008/06/30/the-h-index-an-objective-mismeasure/
• http://michaelnielsen.org/blog/why-the-h-index-is-little-use/
• http://journal.frontiersin.org/article/10.3389/fnhum.2013.00291/full
• http://www.jneurosci.org/content/28/45/11433.full?etoc
• http://www.jneurosci.org/content/28/44/11103.full?etoc#
• http://www.sciencemag.org/content/322/5899/191.1.full
• http://www.sciencemag.org/content/322/5899/165.full#
• http://www.int-res.com/articles/esep2008/8/e008p005.pdf
• http://onlinelibrary.wiley.com/doi/10.1002/asi.20936/full
• http://www.nature.com/nature/journal/v454/n7207/full/454938c.html
• http://scholarlykitchen.sspnet.org/2008/08/04/watching-the-wrong-things/
• http://www.genomebiology.com/2008/9/7/107
• http://scienceblogs.com/clock/2008/07/25/ins-and-outs-of-academia/
• http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0000308
• http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.0030296

Open Access Publishing

• https://www.plos.org/open-access/
• http://www.ncbi.nlm.nih.gov/pmc/about/intro/
• https://www.whitehouse.gov/blog/2013/02/22/expanding-public-access-results-federally-funded-research
• http://www.nsf.gov/news/special_reports/public_access/
• https://ecommons.cornell.edu/bitstream/handle/1813/14150/whitepaper_final.pdf
• http://www.sparc.arl.org/resources/papers-guides/oa-income-models
• http://www.sciencemag.org/news/2017/07/sci-hub-s-cache-pirated-papers-so-big-subscription-journals-are-doomed-data-analyst
• https://www.nature.com/news/us-court-grants-elsevier-millions-in-damages-from-sci-hub-1.22196
• https://alexholcombe.wordpress.com/2015/05/21/scholarly-publisher-profit-update/
• https://medium.com/@jasonschmitt/can-t-disrupt-this-elsevier-and-the-25-2-billion-dollar-a-year-academic-publishing-business-aa3b9618d40a
• https://www.theatlantic.com/science/archive/2016/01/elsevier-academic-publishing-petition/427059/
• https://www.theguardian.com/science/2017/jun/27/profitable-business-scientific-publishing-bad-for-science

Simulation: the "third leg" of science

• http://blogs.scientificamerican.com/the-curious-wavefunction/theories-models-and-the-future-of-science/
• http://cacm.acm.org/magazines/2010/9/98038-science-has-only-two-legs/fulltext
• http://er.educause.edu/articles/2012/6/scientific-research-how-many-paradigms

Big Data: the "fourth leg" of science

• http://www.nytimes.com/2009/12/15/science/15books.html
• http://serc.carleton.edu/earthandmind/posts/4thpardigm.html
• http://research.microsoft.com/en-us/collaboration/fourthparadigm/4th_paradigm_book_complete_lr.pdf

Open Source

• http://scienceblogs.com/commonknowledge/2009/10/30/open-source-science-or-distrib/
• http://opensource.org/
• http://www.hbs.edu/faculty/Publication%20Files/07-050.pdf
• http://www.americanscientist.org/issues/pub/2006/1/wheres-the-real-bottleneck-in-scientific-computing
• http://www.nature.com/articles/sdata20154
• http://pubs.acs.org/doi/10.1021/acs.jpclett.5b00285
• http://pubs.acs.org/doi/abs/10.1021/acs.jpclett.5b01258
• http://pubs.acs.org/doi/10.1021/acs.jpclett.5b02609
• https://danielskatzblog.wordpress.com/2015/08/27/the-price-of-open-source-software-a-joint-response/

Open Data

• http://www.sanger.ac.uk/resources/databases/
• http://www.rcsb.org/pdb/home/home.do
• http://www.shirky.com/writings/ontology_overrated.html
• http://www.pnas.org/content/106/40/16894.full.pdf
• http://creativecommons.org/choose/zero/
• http://www.nature.com/sdata/data-policies/repositories
• http://blogs.nature.com/scientificdata/2015/03/08/repository-highlight-figshare-and-the-crucial-service-of-generalist-repositories/
• http://blogs.nature.com/scientificdata/2014/01/08/scientific-datas-metadata-specification/

Conferences

• http://sciencecareers.sciencemag.org/career_magazine/previous_issues/articles/1999_10_08/nodoi.2496248183250982679
• http://chronicle.com/article/How-to-Get-the-Most-Out-of-/46399/
• http://www.nature.com/nature/journal/v460/n7252/full/460152a.html
• https://www.flickr.com/photos/24801682@N08/3662760870/
• http://chronicle.com/article/Conference-Humiliation-/49185/

Social networking for collaborative science

• http://www.sciencedirect.com/science/article/pii/S0092867409013051
• http://opinionator.blogs.nytimes.com/2009/01/13/guest-column-a-new-kind-of-big-science/
• http://michaelnielsen.org/blog/shirkys-law-and-why-most-social-software-fails/
• http://michaelnielsen.org/blog/doing-science-online/