Abhishek Tiwari

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My name is [http://www3.abhishek-tiwari.com/ Abhishek Tiwari] and I am PhD student in Bioengineering at [http://www.abi.auckland.ac.nz/uoa/ Auckland Bioengineering Institute], the [http://www.auckland.ac.nz/ University of Auckland]. I am condcuting my doctoral research on modelling of hormone dynamics. This wiki is the new home of my PhD research activities and it will provide models, results, experiments, or any other insights related to the project. I also maintain the [http://www.abhishek-tiwari.com/ Fisheye Perspective] blog which aggregates my random thoughts and speculations about science, systems biology, synthetic biology and technology.
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[[Abhishek Tiwari | <font face="trebuchet ms" style="color:#ffffff"> '''Home''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Abhishek Tiwari:About | <font face="trebuchet ms" style="color:#ffffff"> '''About''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Abhishek Tiwari:Resources| <font face="trebuchet ms" style="color:#ffffff"> '''Resources''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Abhishek Tiwari:Projects | <font face="trebuchet ms" style="color:#ffffff"> '''Research & Projects''' </font>]]
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[[Abhishek Tiwari:Softwares | <font face="trebuchet ms" style="color:#ffffff"> '''Softwares''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Abhishek Tiwari:Reprints | <font face="trebuchet ms" style="color:#ffffff"> '''Publications''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Abhishek Tiwari:Links | <font face="trebuchet ms" style="color:#ffffff"> '''ImpLinks''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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[[Abhishek Tiwari:Contact | <font face="trebuchet ms" style="color:#ffffff"> '''Contact''' </font>]] &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
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=Welcome to web page of Abhishek Tiwari=
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Welcome to my OpenWetWare page.
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==Project content==
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*Table of content-[[Modelling Hormone Dynamics]]
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*Publications-[[Manuscripts Modelling Hormone Dynamics]]
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'''Pavel on Bioinformatics'''
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==Quick Links==
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''There are so many new problems and so many unsolved puzzles. So it’s hard, not to get excited!''
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*[[Curated HPA-Axis Models]]
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*[[Modelling ACTH-induced steroidogenesis]]
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*[[Multicellular simulation using CellML]]
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*[[Hormone Dynamics of HAC15/Y1 Cells]]
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*[http://openwetware.org/wiki/OpenWetWare:Information_management/PubgetNotes Referring DOI and PMID]
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=Conferences and Events In News=
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<a href="http://www.iscb.org/ismb2008/"><img src="http://www.iscb.org/ismb2008/images/ISMB08_web.gif" alt="ISMB 2008"  border="0"></a>
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<a href="http://eccb08.org/"><img src="http://eccb08.org/logo_A.png" alt="ECCB 2008"  border="0"></a>
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<a href="http://www.comp.nus.edu.sg/~recomb08/"><img src="http://openwetware.org/images/c/c2/RECOMB.PNG" alt="RECOMB 2008"  border="0"></a>
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'''14 January 2008  Poster submission due'''
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'''You can get more information about upcoming Confrences and Events related to Computaional Biology'''
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*ISCB Event Board http://www.iscb.org/events/event_board.php
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=Top Hits=
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==Applications of Workflow technology in Cheminformatics ,Bioinformatics and Drug Discovery==
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[[Image:Data_Pipelining.jpg]]
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Workflow technology is a mechanism to integrate data, application and services. Workflow technology enables scientist to dynamically construct their own research protocol for scientific analytics and decision making by connecting various resources and software applications together in an innovative way. Workflow technology is being increasingly applied in discovery informatics to organize and analyze data. SciTegic's Pipeline Pilot is a one of the chemically intelligent implementation of a workflow technology known as data pipelining. It allows scientists to construct and execute workflows using components that encapsulate many cheminformatics based algorithms.
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Workflow technology is generic so analytics work flow can be built for any areas like gene expression analysis, sequence analysis, proteomics, system biology and so on. Workflow technology provides an interface where software from different vendors can assemble according to scientific requirement.
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[[Abhishek Tiwari:Workflow technology|Read More]]
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== Chemical Informatics or  Cheminformatics Toolkits==
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"Any idiot can stand up and say that virtual screening doesn't work. It takes real brains to show how to improve it!" - Mark McGann
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Currently a lot of toolkits (Daylight Toolkit, Chemaxon Toolkit, OpenEye Toolkit, MOE SVL, Accord, CDK, JOELib etc) are available from different vendors and organization. Most of them are equally good but choice may vary based on user prospective. I will try to give a summarized overview of some commonly used Chemical Informatics Toolkits. For academics user Chemaxon JChem (which is free for academic user) and Open Source Toolkits like CDK and JOELib will be a better choice. If your budget permits then you can use Daylight, Accord , OpenEye, MOE SVL or any other depending on your needs but Chemaxon and MOE are low budget high quality options.
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[[Abhishek Tiwari:Chemical Informatics Toolkits|Read More]]
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==Bioinformatics Toolkits ==
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As compared to Chemistry and Chemoinformatics where a lot of commercial as well as open source toolkits are available Bioinformatics has very few options. Most of toolkits are specialized in Sequence manipulations and Databases access related and they are not very diverse. Some major toolkits are  Geneious API,BioPerl API,BioJava API,BioPython API, Bioconductor, Mathworks Bioinformatics Toolbox,MBT,NCBI Toolkit and many more. At this moment none of these toolkits are complete and mostly they have some specialized applications.
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[[Abhishek Tiwari:Bioinformatics Toolkits|Read More]]
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==Hot Computational Biology Papers==
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[[Abhishek Tiwari:Hot Computational Biology Papers-By Category|Hot Computational Biology Papers]] is one of the most highlighted sections of my Open Wetware page. Section provides synopsis and comments on the selected article related to computaional biology. Readers are also invited to comment and modify the section.
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==Using SOAP/WSDL to access the Biological/Bioinformatics Databases==
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SOAP (Simple Object Access Protocol) (http://www.w3.org/TR/soap) based Web Services technology (http://www.w3.org/TR/wsdl) has gained much attention as an open standard enabling interoperability among applications across heterogeneous architectures and different networks. When large amounts of data need to be retrieved and analysed, this often proves to be tedious and impractical. Today, biological databases are large collections of data that are relatively difficult to maintain outside the centres and institutions that produce them. These data are traditionally accessed using browser-based World Wide Web interfaces.
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[[Abhishek Tiwari:SOAP/WSDL based webservices for Biological Databases|Read More]]
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== Spotfire based Analytic Solutions for Life Sciences Informatics ==
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The Spotfire Enterprise Analytics platform offers a radically faster business intelligence experience and is far more adaptable to specific industry and business challenges than traditional alternatives.
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[[Abhishek Tiwari:Spotfire|Read More]]
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== Visual Programming Series ==
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[[Image:VDP_Workflow.png‎]]
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Learn what visual programming is and how to use different freely available tools for visual programming in Computational Biology and Chemistry. [[Abhishek Tiwari:Visual Programming|Read More]]
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<a href="http://www.ploscompbiol.org"><img src="http://www.plos.org/images/pcbi_234x60.png" alt="PLoS Computational Biology - www.ploscompbiol.org"  border="0"></a>
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<a href="http://www.plos.org/journals/"><img src="http://www.plos.org/images/banners/library_button.gif" alt="I Support the Public Library of Science"  border="0"></a>
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<a href="http://www.biomedcentral.com/home/"><img src="http://www.biomedcentral.com/graphics/advocacy/bmclogo2.gif" alt="Support Open Access. Spread the Word"  border="0"></a>
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<a href="http://www.iscb.org/"><img src="http://iscb.org/images/index_r3_c1.gif" alt=" The International Society for Computational Biology (ISCB)"  border="0"></a>
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Current revision

My name is Abhishek Tiwari and I am PhD student in Bioengineering at Auckland Bioengineering Institute, the University of Auckland. I am condcuting my doctoral research on modelling of hormone dynamics. This wiki is the new home of my PhD research activities and it will provide models, results, experiments, or any other insights related to the project. I also maintain the Fisheye Perspective blog which aggregates my random thoughts and speculations about science, systems biology, synthetic biology and technology.

Project content

Quick Links

Personal tools