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yas's library [426 articles]

Recent papers added to yas's library.
  • Seeking a New Biology through Text Mining
    Cell, Vol. 134, No. 1. (11 July 2008), pp. 9-13.
    by Andrey Rzhetsky, Michael Seringhaus, Mark Gerstein
    posted to text-mining review by yas on 2008-07-26 03:32:41 as ** along with 4 people icq242500260 jyuh bootsy pzoot
  • OpenDMAP: An open-source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-specific gene expression
    BMC Bioinformatics, Vol. 9 (31 January 2008), 78.
    by Lawrence Hunter, Zhiyong Lu, James Firby, William A Baumgartner, Helen L Johnson, Philip V Ogren, Bretonnel K Cohen
    posted to software information-extraction by yas on 2008-07-25 04:36:10 as ** along with 4 people and 1 group satre jyuh sobolevnrm thomaskelder baker-group
  • SerbGO: searching for the best GO tool.
    Nucleic acids research (14 May 2008)
    by J L L Mosquera, A Sánchez-Pla
    posted to go data-interpretation by yas on 2008-07-07 03:33:13 as ** along with 1 person mariakmejia
  • Non-linear correlation of content and metadata information extracted from biomedical article datasets.
    Journal of biomedical informatics, Vol. 41, No. 1. (February 2008), pp. 202-216.
    by T Theodosiou, L Angelis, A Vakali
    posted to text-classification statistics by yas on 2008-07-07 03:29:41 as **
  • ArrayWiki: an enabling technology for sharing public microarray data repositories and meta-analyses.
    BMC bioinformatics, Vol. 9 Suppl 6 (2008)
    by TH Stokes, JT Torrance, H Li, MD Wang
    posted to wiki microarray knowledge-sharing by yas on 2008-07-01 03:31:27 as ** along with 2 people jyuh thomaskelder
  • Semantic Classification of Biomedical Concepts Using Distributional Similarity
    Journal of the American Medical Informatics Association, Vol. 14, No. 4. ( 2007), pp. 467-477.
    by Jung-Wei Fan, Carol Friedman
    posted to nlp classification by yas on 2008-06-26 03:48:34 as ** along with 1 person and 2 groups ejmeij ilps LanguageModeling
  • A critical review of PASBio's argument structures for biomedical verbs
    BMC Bioinformatics, Vol. 7, No. Suppl 3. (2006)
    by Bretonnel K Cohen, Lawrence Hunter
    posted to review nlp by yas on 2008-06-26 03:44:34 as ** along with 1 person satre
  • Gene-set approach for expression pattern analysis
    Brief Bioinform (17 January 2008), bbn001.
    by Dougu Nam, Seon-Young Kim
    posted to review go gene-expression by yas on 2008-06-24 03:45:54 as ** along with 9 people klo beete tmmurali AlexanderPico heliopais giovenko lp2 seemu thomaskelder
  • Enrichment or depletion of a GO category within a class of genes: which test?
    Bioinformatics (20 December 2006)
    by Isabelle Rivals, Léon Personnaz, Lieng Taing, Marie-Claude C Potier
    posted to statistics go by yas on 2008-06-24 02:43:40 as ** along with 6 people and 2 groups maralena jyuh ealloza grahamc capitall zhouyu BioinfoCIPF ParkinsonLab_at_MaRS
  • Evaluation of techniques for increasing recall in a dictionary approach to gene and protein name identification.
    J Biomed Inform, Vol. 40, No. 3. (June 2007), pp. 316-324.
    by MJ Schuemie, B Mons, M Weeber, JA Kors
    posted to ner by yas on 2008-06-09 08:11:20 as ** along with 1 person Barend
  • Calling on a million minds for community annotation in WikiProteins
    Genome Biology, Vol. 9, No. 5. (2008)
    by Barend Mons, Michael Ashburner, Christine Chichester, Erik van Mulligen, Marc Weeber, Johan den Dunnen, Gert J van Ommen, Mark Musen, Matthew Cockerill, Henning Hermjakob, Albert Mons, Abel Packer, Roberto Pacheco, Suzanna Lewis, Alfred Berkeley, William Melton, Nickolas Barris, Jimmy Wales, Gerard Meijssen, Erik Moeller, Peter Roes, Katy Borner, Amos Bairoch
    posted to text-mining knowledge-sharing by yas on 2008-06-09 06:16:14 as ** along with 12 people and 1 group ChrisEvelo sjc fpattyn Katje jamselem chad_davis renatomilani dullhunk tharris thomaskelder AlexanderPico neils microbiology_nijmegen
  • Anne O'Tate: A tool to support user-driven summarization, drill-down and browsing of PubMed search results
    Journal of Biomedical Discovery and Collaboration, Vol. 3 (15 February 2008), 2.
    by Neil R Smalheiser, Wei Zhou, Vetle I Torvik
    posted to clustering by yas on 2008-05-29 06:22:21 as ** along with 4 people Enro jyuh Gaetan spinaltap526
  • The strength of co-authorship in gene name disambiguation
    BMC Bioinformatics, Vol. 9 (29 January 2008), 69.
    by Richard Farkas
    posted to wsd by yas on 2008-05-29 06:12:27 as ** along with 1 person akastrin
  • MiSearch Adaptive PubMed Search Tool.
    Bioinformatics (6 March 2008)
    by David J J States, Alex S S Ade, Zachary C C Wright, Aaron V V Bookvich, Brian D D Athey
    posted to software information-retrieval by yas on 2008-05-29 06:00:35 as ** along with 3 people jyuh dullhunk Gaetan
  • Synonym set extraction from the biomedical literature by lexical pattern discovery
    BMC Bioinformatics, Vol. 9 (24 March 2008), 159.
    by John Mccrae, Nigel Collier
    posted to text-mining by yas on 2008-05-29 05:57:30 as ** along with 1 person Gaetan
  • PubMed related articles: a probabilistic topic-based model for content similarity
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Jimmy Lin, John W Wilbur
    posted to text-mining by yas on 2008-05-14 10:04:32 as ** along with 6 people jyuh dullhunk msampson Gaetan barriot A_Hoogendam
  • Constructing biological networks through combined literature mining and microarray analysis: a LMMA approach.
    Bioinformatics, Vol. 22, No. 17. (1 September 2006), pp. 2143-2150.
    by S Li, L Wu, Z Zhang
    posted to microarray text-mining by yas on 2008-02-26 09:38:27 as ** along with 1 person jyuh
  • Functional profiling of microarray experiments using text-mining derived bioentities
    Bioinformatics, Vol. 23, No. 22. (15 November 2007), pp. 3098-3099.
    by Pablo Minguez, Fatima Al-Shahrour, David Montaner, Joaquin Dopazo
    posted to microarray text-mining by yas on 2008-02-26 09:35:33 as ** along with 3 people jyuh heliopais dmontaner
  • A language modeling approach to information retrieval
    (1998), pp. 275-281.
    by Jay M Ponte, Bruce B Croft
    posted to information-retrieval by yas on 2008-02-03 15:40:46 as ** along with 7 people and 5 groups A_Olympia deanliao arjen katja ransombriggs dah44 abellogin Philosophy_of_Information Blog_and_Wiki_Research social_navigation ilps ahat
  • Getting Started in Text Mining
    PLoS Computational Biology, Vol. 4, No. 1. (1 January 2008), e20.
    by Bretonnel K Cohen, Lawrence Hunter
    posted to review text-mining by yas on 2008-02-01 11:43:33 as ** along with 13 people and 1 group jfr quianominorleo TheresaNiederberger ulmer jyuh y4su0 dullhunk hpiwowar sebastien_vigneau shigepong cjeans wchapman sci91078 dbmi-nlp
  • Induction of pluripotent stem cells from adult human fibroblasts by defined factors.
    Cell, Vol. 131, No. 5. (30 November 2007), pp. 861-872.
    by K Takahashi, K Tanabe, M Ohnuki, M Narita, T Ichisaka, K Tomoda, S Yamanaka
    posted to biomedical by yas on 2008-01-29 16:04:18 as ** along with 6 people and 1 group jyuh stevezhang tmmurali balicea wsjames shayashi Oxford Virology
  • Frontiers of biomedical text mining: current progress
    Brief Bioinform (30 October 2007), bbm045.
    by Pierre Zweigenbaum, Dina Demner-Fushman, Hong Yu, Kevin B Cohen
    posted to text-classification by yas on 2008-01-17 06:31:30 as ** along with 7 people and 1 group irenas TheresaNiederberger yggdrasil jyuh dullhunk hpiwowar wchapman dbmi-nlp
  • Text processing through Web services: Calling Whatizit
    Bioinformatics (15 November 2007), btm557.
    by Dietrich Rebholz-Schuhmann, Miguel Arregui, Sylvain Gaudan, Harald Kirsch, Antonio J Yepes
    posted to text-mining web-service by yas on 2008-01-15 04:31:36 as ** along with 4 people jyuh dullhunk Gaetan adoms
  • Finding GeneRIFs via gene ontology annotations.
    Pac Symp Biocomput (2006), pp. 52-63.
    by Z Lu, KB Cohen, L Hunter
    posted to summarization by yas on 2008-01-08 22:35:45 as **
  • Semantic retrieval for the accurate identification of relational concepts in massive textbases
    (2006), pp. 1017-1024.
    by Yusuke Miyao, Tomoko Ohta, Katsuya Masuda, Yoshimasa Tsuruoka, Kazuhiro Yoshida, Takashi Ninomiya, Jun'ichi Tsujii
    posted to information-extraction information-retrieval nlp by yas on 2008-01-08 22:32:23 as ** along with 1 person mircea
  • An intelligent search engine and GUI-based efficient MEDLINE search tool based on deep syntactic parsing
    (2006), pp. 17-20.
    by Tomoko Ohta, Yoshimasa Tsuruoka, Jumpei Takeuchi, Jin-Dong Kim, Yusuke Miyao, Akane Yakushiji, Kazuhiro Yoshida, Yuka Tateisi, Takashi Ninomiya, Katsuya Masuda, Tadayoshi Hara, Jun'ichi Tsujii
    posted to nlp web-service by yas on 2008-01-08 22:30:55 as ** along with 1 person mircea
  • Integrating probabilistic extraction models and data mining to discover relations and patterns in text
    (2006), pp. 296-303.
    by Aron Culotta, Andrew Mccallum, Jonathan Betz
    posted to machine-learning text-mining by yas on 2008-01-08 22:05:35 as ** along with 2 people and 2 groups AlisonBabeu dejori ic4 generif_paper
  • Corpus annotation for mining biomedical events from literature
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Jin D Kim, Tomoko Ohta, Jun'ichi Tsujii
    posted to corpus by yas on 2008-01-08 19:26:36 as ** along with 8 people and 2 groups jyuh dullhunk bhaddow sobolevnrm gmonce vlachmore wchapman mircea baker-group dbmi-nlp
  • MILANO - custom annotation of microarray results using automatic literature searches
    BMC Bioinformatics, Vol. 6, No. 1. (2005)
    by Ran Rubinstein, Itamar Simon
    posted to literature-based-annotation microarray by yas on 2008-01-07 09:35:01 as ** along with 1 person and 1 group bundschu generif_paper
  • Identifying gene and protein mentions in text using conditional random fields.
    BMC Bioinformatics, Vol. 6 Suppl 1 (2005)
    by R McDonald, F Pereira
    posted to ner by yas on 2008-01-07 09:27:56 as ** along with 4 people and 1 group bundschu bhaddow johnkork gmonce generif_paper
  • The human disease network
    PNAS, Vol. 104, No. 21. (22 May 2007), pp. 8685-8690.
    by Kwang-Il Goh, Michael E Cusick, David Valle, Barton Childs, Marc Vidal, Albert-Laszlo Barabasi
    posted to gene-expression genotype-phenotype by yas on 2008-01-07 09:12:18 as ** along with 24 people and 8 groups yaredo shoshin carlk mingzhi Yanno jyuh aalibes cannin kuhn jfr balicea neveaire bundschu raiyar grahamc joepickrell leSyl henning dejori xingxu winterschlaefer naegele shikin nolodie GomezLab Biostatistics Computational-Genomics Bioinformatics Neuroscience steinmetzlab ic4 generif_paper
  • Next-generation sequencing transforms today's biology
    Nature Methods, Vol. 5, No. 1. (19 December 2007), pp. 16-18.
    by Stephan C Schuster
    posted to genome by yas on 2008-01-06 00:19:15 as ** along with 4 people kmdaily jyuh balicea xingxu
  • Efficient HPSG Parsing with Supertagging and CFG-Filtering.
    (2007), pp. 1671-1676.
    by Takuya Matsuzaki, Yusuke Miyao, Jun I Tsujii
    edited by Manuela M Veloso
    posted to nlp by yas on 2007-11-05 07:08:07 as **
  • Automatic extraction of gene/protein biological functions from biomedical text
    Bioinformatics, Vol. 21, No. 7. (01 April 2005), pp. 1227-1236.
    by Koike Asako, Niwa Yoshiki, Takagi Toshihisa
    posted to information-extraction by yas on 2007-11-05 06:56:26 as ** along with 3 people and 2 groups irenas helliontroy gaudan dbk-lab biomedical-nlp
  • [Computational analyses of biomedical literature for understanding living organisms]
    Tanpakushitsu Kakusan Koso, Vol. 50, No. 16 Suppl. (December 2005), pp. 2244-2249.
    by Y Yamamoto, T Takagi
    posted to review text-mining by yas on 2007-11-05 06:14:51 as **
  • Automatic construction of knowledge base from biological papers.
    Proc Int Conf Intell Syst Mol Biol, Vol. 5 (1997), pp. 218-225.
    by Y Ohta, Y Yamamoto, T Okazaki, I Uchiyama, T Takagi
    posted to information-extraction information-retrieval nlp by yas on 2007-11-05 06:11:20 as **
  • Human disease classification in the postgenomic era: A complex systems approach to human pathobiology
    Mol Syst Biol, Vol. 3 (10 July 2007)
    by Joseph Loscalzo, Isaac Kohane, Albert-Laszlo Barabasi
    posted to systems-biology by yas on 2007-11-04 09:09:05 as ** along with 6 people and 2 groups Yanno kentsis jfr dchughes zwang nolodie G4ID Genetics-of-Gambling
  • Systems biology. Life's complexity pyramid.
    Science, Vol. 298, No. 5594. (25 October 2002), pp. 763-764.
    by ZN Oltvai, AL Barabási
    posted to systems-biology by yas on 2007-11-04 09:02:35 as ** along with 7 people and 6 groups eldan wnpx sameetmehta jwdietrich mattjb franklin Ema MathBio Cybernetics ComplexAdaptiveSystems DSTO-CAS Biomedical_Cybernetics AQUA-FONTIS-Study
  • Representing, storing and accessing molecular interaction data: a review of models and tools.
    Brief Bioinform, Vol. 7, No. 4. (December 2006), pp. 331-338.
    by L Strömbäck, V Jakoniene, H Tan, P Lambrix
    posted to ontology by yas on 2007-11-04 08:20:30 as ** along with 4 people and 1 group balajis cjeans bootsy annacarina07 801
  • The hormone resistin links obesity to diabetes.
    Nature, Vol. 409, No. 6818. (18 January 2001), pp. 307-312.
    by CM Steppan, ST Bailey, S Bhat, EJ Brown, RR Banerjee, CM Wright, HR Patel, RS Ahima, MA Lazar
    posted to biomedical by yas on 2007-11-04 08:03:27 as **
  • Diabetes. The missing link with obesity?
    Nature, Vol. 409, No. 6818. (18 January 2001), pp. 292-293.
    by JS Flier
    posted to biomedical by yas on 2007-11-04 08:00:45 as **
  • Modelling cellular behaviour.
    Nature, Vol. 409, No. 6818. (18 January 2001), pp. 391-395.
    by D Endy, R Brent
    posted to systems-biology by yas on 2007-11-04 07:37:29 as ** along with 1 person Evangelia
  • Knowledge representation of signal transduction pathways.
    Bioinformatics, Vol. 17, No. 9. (September 2001), pp. 829-837.
    by K Fukuda, T Takagi
    posted to knowledge-sharing by yas on 2007-11-04 07:22:13 as ** along with 1 person tim
  • Biomedical knowledge navigation by literature clustering.
    J Biomed Inform, Vol. 40, No. 2. (April 2007), pp. 114-130.
    by Y Yamamoto, T Takagi
    posted to clustering by yas on 2007-11-04 07:12:57 as ** along with 1 person jyuh
  • Towards zoomable multidimensional maps of the cell
    Nature Biotechnology, Vol. 25, No. 5. (04 May 2007), pp. 547-554.
    by Zhenjun Hu, Joe Mellor, Jie Wu, Minoru Kanehisa, Joshua M Stuart, Charles Delisi
    posted to protein-protein-interactions systems-biology visualization by yas on 2007-11-02 03:14:40 as ** along with 8 people jyuh thomaskelder AlexanderPico tmmurali kuhn cmmorel balajis dullhunk
  • Gene symbol disambiguation using knowledge-based profiles
    Bioinformatics, Vol. 23, No. 8. (15 April 2007), pp. 1015-1022.
    by Xu, Hua, Fan, Jung-Wei, Hripcsak, George, Mendonca, A Eneida, Markatou, Marianthi
    posted to gene-protein-name wsd by yas on 2007-10-03 13:05:27 as ** along with 1 person jyuh
  • BioProber: Software System for Biomedical Relation Discovery from PubMed
    Engineering in Medicine and Biology Society, 2006. EMBS '06. 28th Annual International Conference of the IEEE (2006), pp. 5779-5782.
    by Hyunchul Jang, Jaesoo Lim, Joon-Ho Lim, Soo-Jun Park, Kyu-Chul Lee
    posted to nlp by yas on 2007-09-19 06:03:08 as ** along with 1 person and 1 group Barend T_lab
  • BIOSMILE: A semantic role labeling system for biomedical verbs using a maximum-entropy model with automatically generated template features
    BMC Bioinformatics, Vol. 8 (01 September 2007), 325.
    by Richard T Tsai, Wen-Chi Chou, Ying-Shan Su, Yu-Chun Lin, Cheng-Lung Sung, Hong-Jie Dai, Irene T Yeh, Wei Ku, Ting-Yi Sung, Wen-Lian Hsu
    posted to nlp by yas on 2007-09-11 09:48:52 as ** along with 3 people and 1 group jyuh mircea Barend T_lab
  • Web services in the life sciences
    Drug Discovery Today, Vol. 10, No. 12. (15 June 2005), pp. 865-871.
    by Vasa Curcin, Moustafa Ghanem, Yike Guo
    posted to text-mining web-service by yas on 2007-08-23 08:28:58 as ** along with 7 people and 2 groups dullhunk LeightonP rdhyee nicklynch moborg fisherp Barend Blog_and_Wiki_Research T_lab
  • PubMed vs. HighWire Press: A head-to-head comparison of two medical literature search engines.
    Comput Biol Med, Vol. 37, No. 9. (September 2007), pp. 1252-1258.
    by TE Vanhecke, MA Barnes, J Zimmerman, S Shoichet
    posted to information-retrieval by yas on 2007-08-22 14:38:20 as ** along with 2 people and 1 group dullhunk Gaetan T_lab
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