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Govindjee 《Photosynthesis research》2009,99(2):139-153
As an outgoing Editor of the Historical Corner of Photosynthesis Research, I present here the following list of papers of historical interest for the benefit of all. The first paper I published was:
Govindjee (1988) The Discovery of Chlorophyll–protein Complex by Emil L. Smith during 1937–1941. Photosynth Res 16:285–289. In order to bring
to the readers this List of references on the historical papers published in this journal (and some even elsewhere), I have organized these papers
under the following headings (some are arbitrarily assigned to a particular section since they may fit in more than one section):
(I) biographies (that include obituaries and tributes, arranged alphabetically, with dates of birth and death); (II) recognitions
of scientists (arranged alphabetically) by others; (III) personal perspectives (arranged alphabetically); (IV) historical
papers (first chronologically, by the year of publication, and then alphabetically by the names of the editors); (V) special
issues of Photosynthesis Research (chronologically by the year of publication and then alphabetically by the names of editors); and lastly (VI) Conferences
(available reports in Photosynthesis Research).
I will appreciate readers to send me (by e-mail: gov@illinois.edu) corrections, if any, and additional references from other
journals.
“The firefly seems afire, the sky looks flat;
Yet sky and fly are neither this nor that” 相似文献
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The Synergizer is a database and web service that provides translations of biological database identifiers. It is accessible both programmatically and interactively. AVAILABILITY: The Synergizer is freely available to all users inter-actively via a web application (http://llama.med.harvard.edu/synergizer/translate) and programmatically via a web service. Clients implementing the Synergizer application programming interface (API) are also freely available. Please visit http://llama.med.harvard.edu/synergizer/doc for details. 相似文献
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In this brief report, we provide a pictorial essay on an international conference “Photosynthesis Research for Sustainability-2013 in honor of Jalal A. Aliyev” that was held in Baku, Azerbaijan, during June 5–9, 2013 (http://photosynthesis2013.cellreg.org/). We begin this report with a brief note on Jalal Aliyev, the honored scientist, and on John Walker (1997 Nobel laureate in Chemistry) who was a distinguished guest and lecturer at the Conference. We briefly describe the Conference, and the program. In addition to the excellent scientific program, a special feature of the Conference was the presentation of awards to nine outstanding young investigators; they are recognized in this report. We have also included several photographs to show the pleasant ambience at this conference. (See http://photosynthesis2013.cellreg.org/Photo-Gallery.php; https://www.dropbox.com/sh/qcr124dajwffwh6/TlcHBvFu4H?m; and https://www.copy.com/s/UDlxb9fgFXG9/Baku for more photographs taken by the authors as well as by others.) We invite the readers to the next conferences on “Photosynthesis Research for Sustainability—2014: in honor of Vladimir A. Shuvalov” to be held during June 2–7, 2014, in Pushchino, Russia. Detailed information for this will be posted at the Website: http://photosynthesis2014.cellreg.org/, and for the subsequent conference on “Photosynthesis Research for Sustainability—2015” to be held in May or June 2015, in Baku, Azerbaijan, at http://photosynthesis2015.cellreg.org/. 相似文献
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《Journal of biological education》2012,46(1)
Plant biology - with an emphasis on photosynthesis The Great Plant Escape http://www.urbanext.uiuc.edu/gpe/gpe.html The Power of Green.http://researchmag.asu.edu/stories/power.html Photosynthesis http://biology.ck.uc.edu/courses/biol04/photosyn.htm An Introduction to Photosynthesis and its Applicationhttp://photoscience.la.asu.edu/photosyn/education/photointro.html Aliens Explorers - Photosynthesis http://www.alienexplorer.com/ecology/topic3.html The Photosynthesis Processhttp://www.ifmt.nf.ca/mi-net/enviro/photo3.htm 相似文献
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Rainbow is a program that provides a graphic user interface to construct supertrees using different methods. It also provides tools to analyze the quality of the supertrees produced. Rainbow is available for Mac OS X, Windows and Linux. AVAILABILITY: Rainbow is a free open-source software. Its binary files, source code, and manual can be downloaded from the Rainbow web page: http://genome.cs.iastate.edu/Rainbow/ 相似文献
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A Web-based database system was constructed and implemented that contains 174 tumor suppressor genes. The database homepage was created to accommodate these genes in a pull-down window so that each gene can be viewed individually in a separate Web page. Information displayed on each page includes gene name, aliases, source organism, chromosome location, expression cells/tissues, gene structure, protein size, gene functions and major reference sources. Queries to the database can be conducted through a user-friendly interface, and query results are returned in the HTML format on dynamically generated web pages. AVAILABILITY: The database is available at http://www.cise.ufl.edu/~yy1/HTML-TSGDB/Homepage.html (data files also at http://www.patcar.org/Databases/Tumor_Suppressor_Genes) 相似文献
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Govindjee 《Photosynthesis research》2006,87(2):151-158
This Editorial has four goals: (1) to inform the readers of ‘Photosynthesis Research‘ about the past of the ‘Historical corner’; which began 20 years ago; (2) to encourage photosynthesis researchers and historians of science to contact me for publishing papers of historical interest; these include: (a) Obituaries and Tributes; (b) historical papers on current and past discoveries and controversies; (c) history of research in specific laboratories, or in specific countries, or at specific conferences; (d) Personal perspectives (not discussed any further); (3) to encourage researchers not to discard, but to save correspondence and data of their discoveries for the future historians by donating them to their Archives, when appropriate (not discussed any further); and (4) to reinforce to the readers that the concept of two-light reaction and two-pigment system was already there in 1959. I mention here three key papers presented at the IXth International Botanical Congress, held at Montreal Canada (in August, 1959) prior to the famous April 9, 1960 paper by Robert Hill and Fay Bendall on the ‘Z-scheme’ of photosynthesis, that was based on thermodynamic and energetic considerations.
★ This Historical corner Editorial is dedicated to Bessel Kok (1918–1978). 相似文献
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Krogmann DW 《Photosynthesis research》2000,63(2):109-121
The perspectives and enthusiasms recorded in this review describe the events I witnessed and, in small ways, contributed to.
Two great rewards emerged from my experiences – the pleasure of doing experiments and the great wealth of friendships with
students and colleagues. As a graduate student, phenomena appeared at the bench before me which clarified the coupling of
electron transport to ATP synthesis. My first PhD graduate student measured concentrations of pyridine nucleotides in chloroplasts
and his results have been often confirmed and well used. All of the many graduate students who followed contributed to our
understanding of photosynthesis. I have taken much pleasure from documenting the details of photosynthetic phosphorylation
and electron transport in cyanobacteria. Studies of the `c' type cytochromes in these organisms continue to fascinate me. My experiences in government in its efforts to promote research
are unusual, perhaps unique. A rare event outside the laboratory – a natural bloom of cyanobacteria – stimulated new thoughts
and special opportunities for laboratory science. Photosynthesis seems magisterial in its shaping of our planet and its biology
and in the details of its cleverness that were revealed in the time of my witness.
This revised version was published online in June 2006 with corrections to the Cover Date. 相似文献
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Ganapathiraju M Jursa CJ Karimi HA Klein-Seetharaman J 《Bioinformatics (Oxford, England)》2007,23(20):2795-2796
TMpro is a transmembrane (TM) helix prediction algorithm that uses language processing methodology for TM segment identification. It is primarily based on the analysis of statistical distributions of properties of amino acids in transmembrane segments. This article describes the availability of TMpro on the internet via a web interface. The key features of the interface are: (i) output is generated in multiple formats including a user-interactive graphical chart which allows comparison of TMpro predicted segment locations with other labeled segments input by the user, such as predictions from other methods. (ii) Up to 5000 sequences can be submitted at a time for prediction. (iii) TMpro is available as a web server and is published as a web service so that the method can be accessed by users as well as other services depending on the need for data integration. Availability: http://linzer.blm.cs.cmu.edu/tmpro/ (web server and help), http://blm.sis.pitt.edu:8080/axis/services/TMProFetcherService (web service). 相似文献
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This paper is an introduction to Part 2 of our celebrations of the historical highlights of photosynthesis research. Part
1 was published in October 2002 as Volume 73 of Photosynthesis Research. After a brief introduction, we recognize two giants in the field: Cornelis B. van Niel (for anoxygenic photosynthesis),
and Robert Hill (for oxygenic photosynthesis). This is followed by recognition of a 1960 book by Hans Gaffron, and a multi-authored
book edited by W. Ruhland and André Pirson, and inclusion in the appendix of a list of selected books. Our celebration is
enhanced by the inclusion of beautiful paintings of cells by Antoinette Ryter. After introducing all the historical papers
contained in this volume, we honor Louis N. M. Duysens, one of the greatest biophysicists of our time, and finally we dedicate
this volume to a great scientist, humanist and peacemaker: Eugene I. Rabinowitch. [12pt] 'Annihilating all that is made To
a green thought in a green shade' – Andrew Marvell (1621–1678), The Garden (1681)
This revised version was published online in August 2006 with corrections to the Cover Date. 相似文献
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ProPred1: prediction of promiscuous MHC Class-I binding sites 总被引:5,自引:0,他引:5
SUMMARY: ProPred1 is an on-line web tool for the prediction of peptide binding to MHC class-I alleles. This is a matrix-based method that allows the prediction of MHC binding sites in an antigenic sequence for 47 MHC class-I alleles. The server represents MHC binding regions within an antigenic sequence in user-friendly formats. These formats assist user in the identification of promiscuous MHC binders in an antigen sequence that can bind to large number of alleles. ProPred1 also allows the prediction of the standard proteasome and immunoproteasome cleavage sites in an antigenic sequence. This server allows identification of MHC binders, who have the cleavage site at the C terminus. The simultaneous prediction of MHC binders and proteasome cleavage sites in an antigenic sequence leads to the identification of potential T-cell epitopes. AVAILABILITY: Server is available at http://www.imtech.res.in/raghava/propred1/. Mirror site of this server is available at http://bioinformatics.uams.edu/mirror/propred1/ Supplementary information: Matrices and document on server are available at http://www.imtech.res.in/raghava/propred1/page2.html 相似文献
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Gene co-expression network analysis has been widely performed in systems biology. Here, I use a chromosome-based strategy to find potential chromosome regions associated with disease, and show an example of cancer. All results are available at http://bioinformatics.fafu.edu.cn/chrom-WGCNA/.
相似文献17.
MOTIVATION: Increasing complexity of cell signaling network maps requires sophisticated visualization technologies. Simple web-based visualization tools can allow for improved data presentation and collaboration. Researchers studying cell signaling would benefit from having the ability to embed dynamic cell signaling maps in web pages. SUMMARY: AVIS is a Google gadget compatible web-based viewer of interactive cell signaling networks. AVIS is an implementation of AJAX (Asynchronous JavaScript with XML) with the usage of the libraries GraphViz, ImageMagic (PerlMagic) and overLib. AVIS provides web-based visualization of text-based signaling networks with dynamical zooming, panning and linking capabilities. AVIS is a cross-platform web-based tool that can be used to visualize network maps as embedded objects in any web page. AVIS was implemented for visualization of PathwayGenerator, a tool that displays over 4000 automatically generated mammalian cell signaling maps; NodeNeighborhood a tool to visualize first and second interacting neighbors of yeast and mammalian proteins; and for Genes2Networks, a tool to connect lists of genes and protein using background protein interaction networks. AVAILABILITY: A demo page of AVIS and links to applications and distributions can be found at http://actin.pharm.mssm.edu/AVIS2. Detailed instructions for using and configuring AVIS can be found in the user manual at http://actin.pharm.mssm.edu/AVIS2/manual.pdf. 相似文献
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Prlic A Bliven S Rose PW Bluhm WF Bizon C Godzik A Bourne PE 《Bioinformatics (Oxford, England)》2010,26(23):2983-2985
SUMMARY: With the continuous growth of the RCSB Protein Data Bank (PDB), providing an up-to-date systematic structure comparison of all protein structures poses an ever growing challenge. Here, we present a comparison tool for calculating both 1D protein sequence and 3D protein structure alignments. This tool supports various applications at the RCSB PDB website. First, a structure alignment web service calculates pairwise alignments. Second, a stand-alone application runs alignments locally and visualizes the results. Third, pre-calculated 3D structure comparisons for the whole PDB are provided and updated on a weekly basis. These three applications allow users to discover novel relationships between proteins available either at the RCSB PDB or provided by the user. Availability and Implementation: A web user interface is available at http://www.rcsb.org/pdb/workbench/workbench.do. The source code is available under the LGPL license from http://www.biojava.org. A source bundle, prepared for local execution, is available from http://source.rcsb.org CONTACT: andreas@sdsc.edu; pbourne@ucsd.edu. 相似文献
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V A Eyrich M A Martí-Renom D Przybylski M S Madhusudhan A Fiser F Pazos A Valencia A Sali B Rost 《Bioinformatics (Oxford, England)》2001,17(12):1242-1243
Evaluation of protein structure prediction methods is difficult and time-consuming. Here, we describe EVA, a web server for assessing protein structure prediction methods, in an automated, continuous and large-scale fashion. Currently, EVA evaluates the performance of a variety of prediction methods available through the internet. Every week, the sequences of the latest experimentally determined protein structures are sent to prediction servers, results are collected, performance is evaluated, and a summary is published on the web. EVA has so far collected data for more than 3000 protein chains. These results may provide valuable insight to both developers and users of prediction methods. AVAILABILITY: http://cubic.bioc.columbia.edu/eva. CONTACT: eva@cubic.bioc.columbia.edu 相似文献
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