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Items: 33


Applying Citizen Science to Gene, Drug, and Disease Relationship Extraction from Biomedical Abstracts.

Tsueng G, Nanis M, Fouquier JT, Mayers M, Good BM, Su AI.

Bioinformatics. 2019 Sep 3. pii: btz678. doi: 10.1093/bioinformatics/btz678. [Epub ahead of print]


ChlamBase: a curated model organism database for the Chlamydia research community.

Putman T, Hybiske K, Jow D, Afrasiabi C, Lelong S, Cano MA, Stupp GS, Waagmeester A, Good BM, Wu C, Su AI.

Database (Oxford). 2019 Jan 1;2019. pii: baz091. doi: 10.1093/database/baz091. No abstract available.


WikiGenomes: an open web application for community consumption and curation of gene annotation data in Wikidata.

Putman TE, Lelong S, Burgstaller-Muehlbacher S, Waagmeester A, Diesh C, Dunn N, Munoz-Torres M, Stupp GS, Wu C, Su AI, Good BM.

Database (Oxford). 2017 Jan 1;2017(1). doi: 10.1093/database/bax025.


CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer.

Griffith M, Spies NC, Krysiak K, McMichael JF, Coffman AC, Danos AM, Ainscough BJ, Ramirez CA, Rieke DT, Kujan L, Barnell EK, Wagner AH, Skidmore ZL, Wollam A, Liu CJ, Jones MR, Bilski RL, Lesurf R, Feng YY, Shah NM, Bonakdar M, Trani L, Matlock M, Ramu A, Campbell KM, Spies GC, Graubert AP, Gangavarapu K, Eldred JM, Larson DE, Walker JR, Good BM, Wu C, Su AI, Dienstmann R, Margolin AA, Tamborero D, Lopez-Bigas N, Jones SJ, Bose R, Spencer DH, Wartman LD, Wilson RK, Mardis ER, Griffith OL.

Nat Genet. 2017 Jan 31;49(2):170-174. doi: 10.1038/ng.3774. No abstract available.


Combining machine learning, crowdsourcing and expert knowledge to detect chemical-induced diseases in text.

Bravo À, Li TS, Su AI, Good BM, Furlong LI.

Database (Oxford). 2016 Jun 15;2016. pii: baw094. doi: 10.1093/database/baw094. Print 2016.


Gene Wiki Reviews-Raising the quality and accessibility of information about the human genome.

Tsueng G, Good BM, Ping P, Golemis E, Hanukoglu I, van Wijnen AJ, Su AI.

Gene. 2016 Nov 5;592(2):235-8. doi: 10.1016/j.gene.2016.04.053. Epub 2016 May 2.


Branch: an interactive, web-based tool for testing hypotheses and developing predictive models.

Gangavarapu K, Babji V, Meißner T, Su AI, Good BM.

Bioinformatics. 2016 Jul 1;32(13):2072-2074. doi: 10.1093/bioinformatics/btw117. Epub 2016 Mar 7.


A crowdsourcing workflow for extracting chemical-induced disease relations from free text.

Li TS, Bravo À, Furlong LI, Good BM, Su AI.

Database (Oxford). 2016 Apr 17;2016. pii: baw051. doi: 10.1093/database/baw051. Print 2016.


Centralizing content and distributing labor: a community model for curating the very long tail of microbial genomes.

Putman TE, Burgstaller-Muehlbacher S, Waagmeester A, Wu C, Su AI, Good BM.

Database (Oxford). 2016 Mar 28;2016. pii: baw028. doi: 10.1093/database/baw028. Print 2016.


Wikidata as a semantic framework for the Gene Wiki initiative.

Burgstaller-Muehlbacher S, Waagmeester A, Mitraka E, Turner J, Putman T, Leong J, Naik C, Pavlidis P, Schriml L, Good BM, Su AI.

Database (Oxford). 2016 Mar 17;2016. pii: baw015. doi: 10.1093/database/baw015. Print 2016.


The Implicitome: A Resource for Rationalizing Gene-Disease Associations.

Hettne KM, Thompson M, van Haagen HH, van der Horst E, Kaliyaperumal R, Mina E, Tatum Z, Laros JF, van Mulligen EM, Schuemie M, Aten E, Li TS, Bruskiewich R, Good BM, Su AI, Kors JA, den Dunnen J, van Ommen GJ, Roos M, 't Hoen PA, Mons B, Schultes EA.

PLoS One. 2016 Feb 26;11(2):e0149621. doi: 10.1371/journal.pone.0149621. eCollection 2016.


Citizen Science for Mining the Biomedical Literature.

Tsueng G, Nanis SM, Fouquier J, Good BM, Su AI.

Citiz Sci. 2016;1(2). pii: 14. doi: 10.5334/cstp.56. Epub 2016 Dec 31.


Crowdsourcing in biomedicine: challenges and opportunities.

Khare R, Good BM, Leaman R, Su AI, Lu Z.

Brief Bioinform. 2016 Jan;17(1):23-32. doi: 10.1093/bib/bbv021. Epub 2015 Apr 17. Review.


The cure: design and evaluation of a crowdsourcing game for gene selection for breast cancer survival prediction.

Good BM, Loguercio S, Griffith OL, Nanis M, Wu C, Su AI.

JMIR Serious Games. 2014 Jul 29;2(2):e7. doi: 10.2196/games.3350.


Microtask crowdsourcing for disease mention annotation in PubMed abstracts.

Good BM, Nanis M, Wu C, Su AI.

Pac Symp Biocomput. 2015:282-93.


Crowdsourcing and mining crowd data.

Leaman R, Good BM, Su AI, Lu Z.

Pac Symp Biocomput. 2015:267-9.


Organizing knowledge to enable personalization of medicine in cancer.

Good BM, Ainscough BJ, McMichael JF, Su AI, Griffith OL.

Genome Biol. 2014 Aug 27;15(8):438. doi: 10.1186/s13059-014-0438-7.


Ten simple rules for cultivating open science and collaborative R&D.

Masum H, Rao A, Good BM, Todd MH, Edwards AM, Chan L, Bunin BA, Su AI, Thomas Z, Bourne PE.

PLoS Comput Biol. 2013;9(9):e1003244. doi: 10.1371/journal.pcbi.1003244. Epub 2013 Sep 26. No abstract available.


Gene Wiki Reviews: marrying crowdsourcing with traditional peer review.

Su AI, Good BM, van Wijnen AJ.

Gene. 2013 Dec 1;531(2):125. doi: 10.1016/j.gene.2013.08.093. Epub 2013 Sep 5. No abstract available.


Dizeez: an online game for human gene-disease annotation.

Loguercio S, Good BM, Su AI.

PLoS One. 2013 Aug 7;8(8):e71171. doi: 10.1371/journal.pone.0071171. eCollection 2013. Erratum in: PLoS One. 2013;8(8). doi:10.1371/annotation/efa93b55-c8f0-4943-b922-a585d68f0bd0.


Crowdsourcing for bioinformatics.

Good BM, Su AI.

Bioinformatics. 2013 Aug 15;29(16):1925-33. doi: 10.1093/bioinformatics/btt333. Epub 2013 Jun 19. Review.


A task-based approach for Gene Ontology evaluation.

Clarke EL, Loguercio S, Good BM, Su AI.

J Biomed Semantics. 2013 Apr 15;4 Suppl 1:S4. doi: 10.1186/2041-1480-4-S1-S4. Epub 2013 Apr 15.


Linking genes to diseases with a SNPedia-Gene Wiki mashup.

Good BM, Clarke EL, Loguercio S, Su AI.

J Biomed Semantics. 2012 Apr 24;3 Suppl 1:S6. doi: 10.1186/2041-1480-3-S1-S6.


Building a biomedical semantic network in Wikipedia with Semantic Wiki Links.

Good BM, Clarke EL, Loguercio S, Su AI.

Database (Oxford). 2012 Mar 20;2012:bar060. doi: 10.1093/database/bar060. Print 2012.


Games with a scientific purpose.

Good BM, Su AI.

Genome Biol. 2011 Dec 28;12(12):135. doi: 10.1186/gb-2011-12-12-135.


Mining the Gene Wiki for functional genomic knowledge.

Good BM, Howe DG, Lin SM, Kibbe WA, Su AI.

BMC Genomics. 2011 Dec 13;12:603. doi: 10.1186/1471-2164-12-603.


The Gene Wiki in 2011: community intelligence applied to human gene annotation.

Good BM, Clarke EL, de Alfaro L, Su AI.

Nucleic Acids Res. 2012 Jan;40(Database issue):D1255-61. doi: 10.1093/nar/gkr925. Epub 2011 Nov 10.


Social tagging in the life sciences: characterizing a new metadata resource for bioinformatics.

Good BM, Tennis JT, Wilkinson MD.

BMC Bioinformatics. 2009 Sep 25;10:313. doi: 10.1186/1471-2105-10-313.


DataBiNS: a BioMoby-based data-mining workflow for biological pathways and non-synonymous SNPs.

Song YC, Kawas E, Good BM, Wilkinson MD, Tebbutt SJ.

Bioinformatics. 2007 Mar 15;23(6):780-2. Epub 2007 Jan 18.


iHOPerator: user-scripting a personalized bioinformatics Web, starting with the iHOP website.

Good BM, Kawas EA, Kuo BY, Wilkinson MD.

BMC Bioinformatics. 2006 Dec 15;7:534.


Fast, cheap and out of control: a zero curation model for ontology development.

Good BM, Tranfield EM, Tan PC, Shehata M, Singhera GK, Gosselink J, Okon EB, Wilkinson MD.

Pac Symp Biocomput. 2006:128-39.


The Life Sciences Semantic Web is full of creeps!

Good BM, Wilkinson MD.

Brief Bioinform. 2006 Sep;7(3):275-86. Epub 2006 Aug 9. Review.


Genetic attributes of cerebrospinal fluid-derived HIV-1 env.

Pillai SK, Pond SL, Liu Y, Good BM, Strain MC, Ellis RJ, Letendre S, Smith DM, Günthard HF, Grant I, Marcotte TD, McCutchan JA, Richman DD, Wong JK.

Brain. 2006 Jul;129(Pt 7):1872-83. Epub 2006 May 30.


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