@article{christian2011small, abstract = {A-kinase anchoring proteins (AKAPs) tether protein kinase A (PKA) and other signaling proteins to defined intracellular sites, thereby establishing compartmentalized cAMP signaling. AKAP-PKA interactions play key roles in various cellular processes, including the regulation of cardiac myocyte contractility. We discovered small molecules, 3,3'-diamino-4,4'-dihydroxydiphenylmethane (FMP-API-1) and its derivatives, which inhibit AKAP-PKA interactions in vitro and in cultured cardiac myocytes. The molecules bind to an allosteric site of regulatory subunits of PKA identifying a hitherto unrecognized region that controls AKAP-PKA interactions. FMP-API-1 also activates PKA. The net effect of FMP-API-1 is a selective interference with compartmentalized cAMP signaling. In cardiac myocytes, FMP-API-1 reveals a novel mechanism involved in terminating β-adrenoreceptor-induced cAMP synthesis. In addition, FMP-API-1 leads to an increase in contractility of cultured rat cardiac myocytes and intact hearts. Thus, FMP-API-1 represents not only a novel means to study compartmentalized cAMP/PKA signaling but, due to its effects on cardiac myocytes and intact hearts, provides the basis for a new concept in the treatment of chronic heart failure.}, author = {Christian, F. and Szaszák, M. and Friedl, S. and Drewianka, S. and Lorenz, D. and Goncalves, A. and Furkert, J. and Vargas, C. and Schmieder, P. and Götz, F. and Zühlke, K. and Moutty, M. and Göttert, H. and Joshi, M. and Reif, B. and Haase, H. and Morano, I. and Grossmann, S. and Klukovits, A. and Verli, J. and Gáspár, R. and Noack, C. and Bergmann, M. and Kass, R. and Hampel, K. and Kashin, D. and Genieser, H. G. and Herberg, F. W. and Willoughby, D. and Cooper, D. M. and Baillie, G. S. and Houslay, M. D. and Kries, J. P. von and Zimmermann, B. and Rosenthal, W. and Klussmann, E.}, doi = {10.1074/jbc.M110.160614}, interhash = {826152c3b44eb65ecd70c70883320827}, intrahash = {22fd3df75429ead5ccf5852a9ddf2a66}, journal = {J Biol Chem}, month = mar, number = 11, pages = {9079-9096}, pmid = {21177871}, title = {Small molecule AKAP-protein kinase A (PKA) interaction disruptors that activate PKA interfere with compartmentalized cAMP signaling in cardiac myocytes}, url = {http://www.ncbi.nlm.nih.gov/pubmed/21177871?dopt=Abstract}, volume = 286, year = 2011 } @inproceedings{conf/cikm/DingFJPCPRDS04, author = {Ding, Li and Finin, Timothy W. and Joshi, Anupam and Pan, Rong and Cost, R. Scott and Peng, Yun and Reddivari, Pavan and Doshi, Vishal and Sachs, Joel}, booktitle = {CIKM}, ee = {http://doi.acm.org/10.1145/1031289}, interhash = {17031c743c455bf9de56e142d727dbb7}, intrahash = {ab5c85d78daba236ca1bb5ad49865ee5}, pages = {652-659}, title = {Swoogle: a search and metadata engine for the semantic web.}, url = {http://dblp.uni-trier.de/db/conf/cikm/cikm2004.html#DingFJPCPRDS04}, year = 2004 } @article{holsapple2002collaborative, author = {Holsapple, Clyde W. and Joshi, K. D.}, file = {holsapple2002collaborative.pdf:holsapple2002collaborative.pdf:PDF}, interhash = {7f11603c8777130c2bbd10da102a86f3}, intrahash = {09e47889685c9ba0567d72d2227cc265}, journal = {Commun. ACM}, lastdatemodified = {2006-12-04}, lastname = {Holsapple}, number = 2, own = {buy}, pages = {42--47}, pdf = {holsapple02-collaborative.pdf}, read = {notread}, title = {A collaborative approach to ontology design}, volume = 45, year = 2002 } @article{christian2010small, abstract = {A-kinase anchoring proteins (AKAPs) tether protein kinase A (PKA) and other signaling proteins to defined intracellular sites, thereby establishing compartmentalized cAMP signaling. AKAP-PKA interactions play key roles in various cellular processes including the regulation of cardiac myocyte contractility. We discovered small molecules, FMP-API-1 and its derivatives, which inhibit AKAP-PKA interactions in vitro and in cultured cardiac myocytes. The molecules bind to an allosteric site of regulatory subunits of PKA identifying a hitherto unrecognized region that controls AKAP-PKA interactions. FMP-API-1 also activates PKA. The net effect of FMP-API-1 is a selective interference with compartmentalized cAMP signaling. In cardiac myocytes, FMP-API-1 reveals a novel mechanism involved in terminating beta-adrenoceptor-induced cAMP synthesis. In addition, FMP-API-1 leads to an increase in contractility of cultured rat cardiac myocytes and intact hearts. Thus FMP-API-1 represents not only a novel means to study compartmentalized cAMP/PKA signaling but, due to its effects on cardiac myocytes and intact hearts, provides the basis for a new concept in the treatment of chronic heart failure.}, author = {Christian, F. and Szaszak, M. and Friedl, S. and Drewianka, S. and Lorenz, D. and Goncalves, A. and Furkert, J. and Vargas, C. and Schmieder, P. and Goetz, F. and Zuehlke, K. and Moutty, M. and Goettert, H. and Joshi, M. and Reif, B. and Haase, H. and Morano, I. and Grossmann, S. and Klukovits, A. and Verli, J. and Gaspar, R. and Noack, C. and Bergmann, M. and Kass, R. and Hampel, K. and Kashin, D. and Genieser, H. G. and Herberg, F. W. and Willoughby, D. and Cooper, D. M. and Baillie, G. S. and Houslay, M. D. and von Kries, J. P. and Zimmermann, B. and Rosenthal, W. and Klussmann, E.}, doi = {10.1074/jbc.M110.160614}, interhash = {c286a89563a2f6766eecc1b6e13b638b}, intrahash = {314de6fdd05cc2b5168c0ae6867a6904}, journal = {J Biol Chem}, month = dec, number = 11, pages = {9079-96}, pmid = {21177871}, title = {Small molecule AKAP/PKA interaction disruptors that activate PKA interfere with compartmentalized cAMP signaling in cardiac myocytes}, url = {http://www.ncbi.nlm.nih.gov/pubmed/21177871}, volume = 286, year = 2010 } @article{kolari2006blog, author = {Kolari, P. and Java, A. and Finin, T. and Mayfield, J. and Joshi, A. and Martineau, J.}, interhash = {22f376a3a5e2ee890908d81f409fc08c}, intrahash = {e8d9c31822799d4d862a4bbcd885a4cf}, journal = {TREC 2006 Blog Track Notebook}, publisher = {Citeseer}, title = {{Blog track open task: Spam blog classification}}, url = {http://scholar.google.com/scholar.bib?q=info:BXvRJMPpbFUJ:scholar.google.com/&output=citation&hl=en&as_sdt=2000&as_vis=1&ct=citation&cd=10}, year = 2006 } @article{hundsrucker2010glycogen, abstract = {A-kinase anchoring proteins (AKAPs) include a family of scaffolding proteins that target protein kinase A (PKA) and other signaling proteins to cellular compartments and thereby confine the activities of the associated proteins to distinct regions within cells. AKAPs bind PKA directly. The interaction is mediated by the dimerization and docking domain of regulatory subunits of PKA and the PKA-binding domain of AKAPs. Analysis of the interactions between the dimerization and docking domain and various PKA-binding domains yielded a generalized motif allowing the identification of AKAPs. Our bioinformatics and peptide array screening approaches based on this signature motif identified GSKIP (glycogen synthase kinase 3beta interaction protein) as an AKAP. GSKIP directly interacts with PKA and GSK3beta (glycogen synthase kinase 3beta). It is widely expressed and facilitates phosphorylation and thus inactivation of GSK3beta by PKA. GSKIP contains the evolutionarily conserved domain of unknown function 727. We show here that this domain of GSKIP and its vertebrate orthologues binds both PKA and GSK3beta and thereby provides a mechanism for the integration of PKA and GSK3beta signaling pathways.}, author = {Hundsrucker, C. and Skroblin, P. and Christian, F. and Zenn, H. M. and Popara, V. and Joshi, M. and Eichhorst, J. and Wiesner, B. and Herberg, F. W. and Reif, B. and Rosenthal, W. and Klussmann, E.}, doi = {10.1074/jbc.M109.047944}, interhash = {ee6e1912465d7f26ec8041493fcd783b}, intrahash = {04e95f9b5b15ff74facf7cd4891feea2}, journal = {J Biol Chem}, month = feb, number = 8, pages = {5507-5521}, pmid = {20007971}, title = {Glycogen synthase kinase 3beta interaction protein functions as an A-kinase anchoring protein}, url = {http://www.ncbi.nlm.nih.gov/pubmed/20007971}, volume = 285, year = 2010 } @inproceedings{Approximating2008Java, abstract = {In many social media applications, a small fraction of the members are highly linked while most are sparsely connected to the network. Such a skewed distribution is sometimes referred to as the"long tail". Popular applications like meme trackers and content aggregators mine for information from only the popular blogs located at the head of this curve. On the other hand, the long tail contains large volumes of interesting information and niches. The question we address in this work is how best to approximate the community membership of entities in the long tail using only a small percentage of the entire graph structure. Our technique utilizes basic linear algebra manipulations and spectral methods. It has the advantage of quickly and efficiently finding a reasonable approximation of the community structure of the overall network. Such a method has significant applications in blog analysis engines as well as social media monitoring tools in general. }, author = {Java, Akshay and Joshi, Anupam and FininBook, Tim}, booktitle = {Proceedings of the Second International Conference on Weblogs and Social Media(ICWSM 2008)}, date = {2008 Abstract:}, interhash = {ede357e110fee8803dc181d262f30087}, intrahash = {386f36679c111f30e37ced272d5b355c}, publisher = {AAAI Press}, title = {Approximating the Community Structure of the Long Tail}, url = {http://ebiquity.umbc.edu/paper/html/id/381/Approximating-the-Community-Structure-of-the-Long-Tail}, year = 2008 } @inproceedings{Detecting_Commmunities_via_Simultaneous_Clustering_of_Graphs_and_Folksonomies, author = {Java, Akshay and Joshi, Anupam and Finin, Tim}, booktitle = {WebKDD 2008 Workshop on Web Mining and Web Usage Analysis}, interhash = {acfec953843b168e61e2e167e29b4c3d}, intrahash = {645abd6b3191a2a6e844d7542651ed1c}, month = {August}, note = {To Appear}, title = {Detecting Commmunities via Simultaneous Clustering of Graphs and Folksonomies}, year = 2008 } @inproceedings{Java2008, abstract = {We present a simple technique for detecting communities by utilizing both the link structure and folksonomy (or tag) information that is readily available in most social media systems. A simple way to describe our approach is by defining a community as a set of nodes in a graph that link more frequently to within this set than outside it and they share similar tags. Our technique is based on the Normalized Cut (NCut) algorithm and can be easily and efficiently implemented. We validate our method by using a real network of blogs and tag information obtained from a social bookmarking site. We also verify our results on a citation network for which we have access to ground truth cluster information. Our method, Simultaneous Cut (SimCut), has the advantage that it can group related tags and cluster the nodes simultaneously.}, author = {Java, Akshay and Joshi, Anupam and Finin, Tim}, booktitle = {Proceedings of the Tenth Workshop on Web Mining and Web Usage Analysis (WebKDD)}, interhash = {acfec953843b168e61e2e167e29b4c3d}, intrahash = {80e4f692625afcf21e8195915ea93de0}, month = {August}, note = {Held in conjunction with The 14th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD 2008)}, publisher = {ACM}, title = {Detecting Commmunities via Simultaneous Clustering of Graphs and Folksonomies}, url = {http://ebiquity.umbc.edu/paper/html/id/406/Detecting-Commmunities-via-Simultaneous-Clustering-of-Graphs-and-Folksonomies}, year = 2008 } @inproceedings{Detecting_Commmunities_via_Simultaneous_Clustering_of_Graphs_and_Folksonomies, author = {Java, Akshay and Joshi, Anupam and Finin, Tim}, booktitle = {WebKDD 2008 Workshop on Web Mining and Web Usage Analysis}, interhash = {acfec953843b168e61e2e167e29b4c3d}, intrahash = {645abd6b3191a2a6e844d7542651ed1c}, month = {August}, note = {To Appear}, title = {Detecting Commmunities via Simultaneous Clustering of Graphs and Folksonomies}, year = 2008 } @inproceedings{Detecting_Commmunities_via_Simultaneous_Clustering_of_Graphs_and_Folksonomies, author = {Java, Akshay and Joshi, Anupam and Finin, Tim}, booktitle = {WebKDD 2008 Workshop on Web Mining and Web Usage Analysis}, interhash = {acfec953843b168e61e2e167e29b4c3d}, intrahash = {645abd6b3191a2a6e844d7542651ed1c}, month = {August}, note = {To Appear}, title = {{Detecting Commmunities via Simultaneous Clustering of Graphs and Folksonomies}}, year = 2008 } @article{datta2008, abstract = {We have witnessed great interest and a wealth of promise in content-based image retrieval as an emerging technology. While the last decade laid foundation to such promise, it also paved the way for a large number of new techniques and systems, got many new people involved, and triggered stronger association of weakly related fields. In this paper, we survey almost 300 key theoretical and empirical contributions in the current decade related to image retrieval and automatic image annotation, and discuss the spawning of related sub-fields in the process. We also discuss significant challenges involved in the adaptation of existing image retrieval techniques to build systems that can be useful in the real-world. In retrospect of what has been achieved so far, we also conjecture what the future may hold for image retrieval research.}, author = {Datta, Ritendra and Joshi, Dhiraj and Li, Jia and Wang, James Z.}, interhash = {6f908ace6a3d5135960dc663d6335922}, intrahash = {278a48194bc9afbd298c36dd497a9821}, journal = {ACM Computing Surveys}, number = 2, title = {Image Retrieval: Ideas, Influences, and Trends of the New Age}, url = {http://infolab.stanford.edu/~wangz/project/imsearch/review/JOUR/}, volume = 40, year = 2008 } @inproceedings{Approximating2008Java, abstract = {In many social media applications, a small fraction of the members are highly linked while most are sparsely connected to the network. Such a skewed distribution is sometimes referred to as the"long tail". Popular applications like meme trackers and content aggregators mine for information from only the popular blogs located at the head of this curve. On the other hand, the long tail contains large volumes of interesting information and niches. The question we address in this work is how best to approximate the community membership of entities in the long tail using only a small percentage of the entire graph structure. Our technique utilizes basic linear algebra manipulations and spectral methods. It has the advantage of quickly and efficiently finding a reasonable approximation of the community structure of the overall network. Such a method has significant applications in blog analysis engines as well as social media monitoring tools in general. }, author = {Java, Akshay and Joshi, Anupam and FininBook, Tim}, booktitle = {Proceedings of the Second International Conference on Weblogs and Social Media(ICWSM 2008)}, date = {2008 Abstract:}, interhash = {ede357e110fee8803dc181d262f30087}, intrahash = {386f36679c111f30e37ced272d5b355c}, publisher = {AAAI Press}, title = {Approximating the Community Structure of the Long Tail}, url = {http://ebiquity.umbc.edu/paper/html/id/381/Approximating-the-Community-Structure-of-the-Long-Tail}, year = 2008 } @inproceedings{DBLP:conf/semweb/DingPFJPK05, author = {Ding, Li and Pan, Rong and Finin, Timothy W. and Joshi, Anupam and Peng, Yun and Kolari, Pranam}, bibsource = {DBLP, http://dblp.uni-trier.de}, booktitle = {International Semantic Web Conference}, crossref = {DBLP:conf/semweb/2005}, ee = {http://dx.doi.org/10.1007/11574620_14}, interhash = {fbd1c77889dc928ae2c157761d1b5567}, intrahash = {12ca34d21f87f455fe38ca90c5ddf377}, pages = {156-170}, title = {Finding and Ranking Knowledge on the Semantic Web.}, url = {http://ebiquity.umbc.edu/get/a/publication/197.pdf}, year = 2005 } @inproceedings{conf/cikm/DingFJPCPRDS04, author = {Ding, Li and Finin, Timothy W. and Joshi, Anupam and Pan, Rong and Cost, R. Scott and Peng, Yun and Reddivari, Pavan and Doshi, Vishal and Sachs, Joel}, booktitle = {CIKM}, ee = {http://doi.acm.org/10.1145/1031289}, interhash = {17031c743c455bf9de56e142d727dbb7}, intrahash = {ab5c85d78daba236ca1bb5ad49865ee5}, pages = {652-659}, title = {Swoogle: a search and metadata engine for the semantic web.}, url = {http://dblp.uni-trier.de/db/conf/cikm/cikm2004.html#DingFJPCPRDS04}, year = 2004 }