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cb2Bib: Examples

 

The following examples illustrate each of the automatic recognition patterns available in the distribution file regexp.txt.

The 'copy and paste' mechanisms are rather software and platform dependent. In addition, reference webpages might slightly vary upon one being a site subscriber or a free user. Such variations prevent from writing 'definitive' cb2Bib recognition patterns. Regular expressions in the distribution file are tailored to work within the KDE-KMail-Konqueror environment. The regexp.txt file in the Windows distribution is adapted to IE version 6.0. Some tweaking or new regular expressions might be necessary on other environments.

To test the Examples, launch cb2Bib, and select the text within the boxes (type also Ctrl-C if running cb2Bib on a Windows machine). The cb2Bib will automatically extract the selected reference.

See Release Note cb2Bib 0.3.0 for additional information and an example with multiple author strings.

 

cb2Bib 0.9.5 Predefined Patterns

 

BibTeX

@article{constans:10451,
author = {Pere Constans and Philippe Y. Ayala and Gustavo E. Scuseria},
title = {Scaling reduction of the perturbative triples correction (T) 
         to coupled cluster theory via Laplace transform formalism},
publisher = {AIP},
year = {2000},
journal = {The Journal of Chemical Physics},
volume = {113},
number = {23},
pages = {10451-10458},
keywords = {coupled cluster calculations; Laplace transforms;
            perturbation theory; orbital calculations},
url = {http://link.aip.org/link/?JCP/113/10451/1}
}

Science, PNAS, and The Journal of Chemical Physics websites already export to BibTeX format. This is the safest way to retrieve a reference with cb2Bib. Select from @article to the last }. cb2Bib automatically imports the reference. Once imported, cb2Bib permits adding the abstract, keywords or renaming and relocating the PDF article file.

 

PNAS Table of Contents Alert

Space weathering on airless planetary bodies: Clues from the lunar mineral 
hapkeite
     Mahesh Anand, Lawrence A. Taylor, Mikhail A. Nazarov, J. Shu, H.-K. 
     Mao, and Russell J. Hemley
     PNAS 2004;101 6847-6851
     http://www.pnas.org/cgi/content/abstract/101/18/6847?etoc

 

ISI Web of Knowledge Table of Contents Alert

Title:
The Hedgehog response network: Sensors, switches, and routers

Authors:
Lum, L; Beachy, PA

Source:
SCIENCE, 304 (5678): 1755-1759; JUN 18 2004

Abstract:
The Hedgehog (Hh) signaling pathway is [ ... an example from real ... ] 
transcription factor, Ci.

 

Wiley InterScience Journal Abstracts

Cover Image

Journal of Computational Chemistry

Volume 18, Issue 6 , Pages 826 - 846

Published Online: 7 Dec 1998

Copyright © 1997 John Wiley & Sons, Inc.
Journal Homepage Link
E-Mail and Print ToolbarE-MailPrint

< Previous Abstract  |  Next Abstract >

Save Article to My Profile      Download Citation

Abstract  |  References  |  Full Text: PDF (320k)  |  Related Articles  |  Citation Tracking


Toward a global maximization of the molecular similarity function: Superposition of two molecules
Pere Constans *, Lluís Amat, Ramon Carbó-Dorca
Institute of Computational Chemistry, University of Girona, Albereda 3-5, 17071 Girona, Catalonia, Spain

*Correspondence to Pere Constans, Institute of Computational Chemistry, University of Girona, Albereda 3-5, 17071 Girona, Catalonia, Spain

Funded by:
 Catalan Government; Grant Number: CIRIT OA/au BQF93/24

KEYWORDS
molecular quantum similarity measures (MQSM) - atomic shell approximation (ASA) - global maximization - molecular alignments
ABSTRACT
A quantum similarity measure between two molecules is normally identified with the maximum value of the overlap of the corresponding molecular electron densities. The electron density overlap is a function of the mutual positioning of the compared molecules, requiring the measurement of similarity, a solution of a multiple-maxima problem. Collapsing the molecular electron densities into the nuclei provides the essential information toward a global maximization of the overlap similarity function, the maximization of which, in this limit case, appears to be related to the so-called assignment problem. Three levels of approach are then proposed for a global search scanning of the similarity function. In addition, atom - atom similarity Lorentzian potential functions are defined for a rapid completion of the function scanning. Performance is tested among these three levels of simplification and the Monte Carlo and simplex methods. Results reveal the present algorithms as accurate, rapid, and unbiased techniques for density-based molecular alignments. © 1997 by John Wiley & Sons, Inc. J Comput Chem 18: 826-846, 1997

Select from the topmost Journal ... to the bottom ... 18: 826-846, 1997. Do not select the cover image.

 

American Chemical Society Publications

J. Chem. Inf. Comput. Sci., 40 (2), 452 -459, 2000. 10.1021/ci990082e S0095-2338(99)00082-7
Web Release Date: March 9, 2000

Copyright © 2000 American Chemical Society

Nonparametric Regression Applied to Quantitative Structure-Activity Relationships

Pere Constans and Jonathan D. Hirst*

Department of Molecular Biology, TPC-6, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037

Received August 23, 1999

Abstract:

Several nonparametric regressors have been applied to modeling quantitative structure-activity relationship (QSAR) data. [ ... an example from real ... ] nonparametric regressors can be successfully coupled with better variable selection and dimensionality reduction in the context of high-dimensional QSARs.

 

ScienceDirect

Chemical Physics Letters
Volume 386, Issues 4-6 , 11 March 2004, Pages 272-278

This Document
Abstract
Full Text + Links
PDF (265 K)
Actions
E-mail Article

doi:10.1016/j.cplett.2004.01.069    How to Cite or Link Using DOI (Opens New Window)  
Copyright © 2004 Elsevier B.V. All rights reserved.

Fock matrix dynamics

Peter PulayCorresponding Author Contact Information, E-mail The Corresponding Author, a and Géza Fogarasib

a Department of Chemistry and Biochemistry, Chemistry Building, University of Arkansas, Fayetteville, AR 72701, USA
b Department of Theoretical Chemistry, Eötvös L. University, Pf. 32, H-1518, Budapest, Hungary

Received 17 July 2003;  Revised 19 January 2004.  Available online 11 February 2004.


Abstract

An efficient method is suggested for direct ab initio Born-Oppenheimer molecular dynamics. [ ... an example from real ... ] Examples include water clusters and hydrated halogen ions, running simulations for several picoseconds.

Select from the topmost Chemical Physics ... to the bottom ... several picoseconds. (or to include also Author Keywords if keywords are available and desired). Take care not to click the link while selecting.
A Note on ScienceDirect: Author superscripts a, b, ... directing to authors' affiliations cannot always be properly cleaned. Supperscript formating is lost when translated to plain text. Such supperscript may later be understood by cb2Bib as part of the author's lastname.

 

DBLP article

2002
1EEPere Constans: Linear scaling approaches to quantum macromolecular similarity: Evaluating the similarity function. Journal of Computational Chemistry 23(14): 1305-1313 (2002)

Select from Pere ... to ... (2002). Hint: If first author was a link, select backwards, from year to first author to avoid clicking while selecting.

 

Nature from First Paragraph

Nature 430, 205 - 208 (08 July 2004); doi:10.1038/nature02703

Evolutionary change from induced to constitutive expression of an indirect plant resistance
MARTIN HEIL1, SABINE GREINER1,2, HARALD MEIMBERG3, RALF KRÜGER1, JEAN-LOUIS NOYER4, GÜNTHER HEUBL3, K. EDUARD LINSENMAIR2 & WILHELM BOLAND1

1 Department of Bioorganic Chemistry, Max-Planck-Institute for Chemical Ecology, Germany
2 Lehrstuhl Zoologie III, Biozentrum, Am Hubland, D-94074 Würzburg, Germany
3 Department of Biology I, Section: Biodiversity Research, Systematic Botany, LMU Munich, Germany
4 CIRAD, UMR 1096/PIA, TA 40/03, Avenue Agropolis, F-34398 Montpellier Cedex 5, France

Correspondence and requests for materials should be addressed to M.H.
The trnK intron and the trnL–trnF region sequences are published in GenBank under accession numbers AY574092–AY574105 (trnK intron) and AY574106–AY574114 (trnL–trnF region).


Induced plant resistance [ ... an example from real ... ] particular functional demands.

 

IOP Electronic Journals

S Odake and R Sasaki 2004 J. Phys. A: Math. Gen. 37 11841-11876

Equilibria of 'discrete' integrable systems and deformation of classical orthogonal polynomials

S Odake1 and R Sasaki2

1 Department of Physics ... Japan
2 Yukawa Institute for Theoretical Physics ... Japan

Received 23 July 2004, in final form 20 October 2004
Published 24 November 2004

Print publication: Issue 49 (10 December 2004)

Abstract. The Ruijsenaars - Schneider systems [ ... an example from real ... ] reduce to the celebrated second-order differential equations satisfied by the classical orthogonal polynomials.

 

JSTOR

The Optimal Design of International Trade Institutions: Uncertainty and Escape
B. Peter Rosendorff; Helen V. Milner
International Organization, Vol. 55, No. 4, The Rational Design of International Institutions. (Autumn, 2001), pp. 829-857.
Stable URL: http://links.jstor.org/

Abstract

International institutions that include [ ... an example from real ... ] gains from the agreement is not immutable.

Select from The Optimal ..., either, to ... pp. 829-857., or, including the abstract, to ... not immutable. JSTOR search listings are also extractable, as they conform to the first selection pattern.

 

ISI Reference Format

PT Journal
AU Kohn, W
AU Becke, AD
AU Parr, RG
TI Density functional theory of electronic structure
SO JOURNAL OF PHYSICAL CHEMISTRY
BP 12974
EP 12980
PG 7
JI J. Phys. Chem.
PY 1996
PD AUG 1
VL 100
IS 31
J9 J PHYS CHEM
ER

Example provided for testing isi2bib external preparsing script. See Configuring Input for the setup details.

 

RIS Reference Format

TY  - JOUR
AU  - A. J. Coleman
PY  - 1963
TI  - Structure of fermion density matrices
JO  - Rev. Mod. Phys.
SP  - 668
VL  - 35
ER  -

Example provided for testing ris2bib external preparsing script. See Configuring Input for the setup details.