Ten simple rules for reducing overoptimistic reporting in methodological computational research

PLoS Computational Biology

Volumn 11, Issue 4, 2015, Pages

  Boulesteix, Anne Laure ^a  

^a UNIVERSITY OF MUNICH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

COMPUTATIONAL RESEARCHES; SIMPLE++;

ANALYTICAL RESEARCH; BAYES THEOREM; BIOMEDICINE; CLASSIFICATION ALGORITHM; DATA BASE; EDITORIAL; INFORMATION PROCESSING; MATHEMATICAL ANALYSIS; METHODOLOGICAL COMPUTATIONAL RESEARCH; METHODOLOGY; PRACTICE GUIDELINE; SIMULATION; SUPPORT VECTOR MACHINE; THEORETICAL MODEL; VALIDATION PROCESS; BIOLOGY; FACTUAL DATABASE; HUMAN; PROCEDURES; STANDARDS;

COMPUTATIONAL BIOLOGY; DATABASES, FACTUAL; HUMANS; RESEARCH DESIGN;

EID: 84929465279     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1004191     Document Type: Editorial

References (18)

1. Macleod MR, Michie S, Roberts I, Dirnagl U, Chalmers I, Ioannidis JP, et al. (2014) Biomedical research: increasing value, reducing waste. The Lancet 383: 101–104. doi: 10.1016/S0140-6736(13)62329-6 24411643
2. Ioannidis JP (2014) How to make more published research true. PLoS Medicine 11: e1001747. doi: 10.1371/journal.pmed.1001747 25334033
3. Ioannidis JP (2005) Why most published research findings are false. PLoS Medicine 2: e124. 16060722
4. Easterbrook PJ, Gopalan R, Berlin J, Matthews DR (1991) Publication bias in clinical research. The Lancet 337: 867–872. 1672966
5. Boulesteix AL, Lauer S, Eugster MJE (2013) A plea for neutral comparison studies in computational sciences. PLoS One 8: e61562. doi: 10.1371/journal.pone.0061562 23637855
6. Dashnow H, Lonsdale A, Bourne PE (2014) Ten simple rules for writing a plos ten simple rules article. PLoS Computational Biology 10: e1003858. doi: 10.1371/journal.pcbi.1003858 25340653
7. Jelizarow M, Guillemot V, Tenenhaus A, Strimmer K, Boulesteix AL (2010) Over-optimism in bioinformatics: an illustration. Bioinformatics 26: 1990–1998. doi: 10.1093/bioinformatics/btq323 20581402
8. Boulesteix AL (2013) On representative and illustrative comparisons with real data in bioinformatics: response to the letter to the editor by Smith et al. Bioinformatics 29: 2664–2666. doi: 10.1093/bioinformatics/btt458 23929033
9. Boulesteix AL, Hable R, Lauer S, Eugster MJE. A statistical framework for hypothesis testing in real data comparison studies. The American Statistician [Internet]. 2015 Jan. Available from: 10.1080/00031305.2015.1005128#.VQhuq47F-gY.
10. Yousefi MR, Hua J, Sima C, Dougherty ER (2010) Reporting bias when using real data sets to analyze classification performance. Bioinformatics 26: 68–76. doi: 10.1093/bioinformatics/btp605 19846436
11. Wolpert D, (2001) The supervised learning no-free-lunch theorems. In: Proceedings of the 6th Online World Conference on Soft Computing in Industrial Applications. Citeseer, volume 6, pp. 1–20.
12. Bourne PE, (2005) Ten simple rules for getting published. PLoS Computational Biology 1: e57. 16261197
13. Rocke DM, Ideker T, Troyanskaya O, Quackenbush J, Dopazo J, (2009) Papers on normalization, variable selection, classification or clustering of microarray data. Bioinformatics 25: 701–702.
14. Sandve GK, Nekrutenko A, Taylor J, Hovig E, (2013) Ten simple rules for reproducible computational research. PLoS Computational Biology 9: e1003285. doi: 10.1371/journal.pcbi.1003285 24204232
15. Altman DG, Simera I, Hoey J, Moher D, Schulz K, (2008) EQUATOR: reporting guidelines for health research. Lancet 371: 1149–1150. doi: 10.1016/S0140-6736(08)60505-X 18395566
16. Zhang W, (2014) Ten simple rules for writing research papers. PLoS Computational Biology 10: e1003453. doi: 10.1371/journal.pcbi.1003453 24499936
17. Rougier NP, Droettboom M, Bourne PE, (2005) Ten simple rules for better figures. PLoS Computational Biology 10: e1003833. doi: 10.1371/journal.pcbi.1003833 25210732
18. Osborne JM, Bernabeu MO, Bruna M, Calderhead B, Cooper J, Dalchau n, et al. (2014) Ten simple rules for effective computational research. PLoS Computational Biology 10: e1003506. doi: 10.1371/journal.pcbi.1003506 24675742