CAS REGISTRYSM BLAST® Upgrade Improves Search Capabilities and Results Ranking
The BLAST software used in CAS REGISTRY BLAST was upgraded to version 2.2.29. CAS REGISTRY BLAST is the integrated software and data solution created by CAS for sequence searching in STN Express® and STN® on the WebSM. The backbone to CAS REGISTRY BLAST is BLAST software, developed by the U.S. National Center for Biotechnology Information (NCBI).
Key changes in this version are as follows:
- Expanded search capabilities: It is now possible to search proteins that include J (leucine or isoleucine) and/or O (pyrrolysine) residues.
- Better results ranking: Sequences with gaps are now scored differently. Instead of a score for each individual sequence separated by a gap, a score is computed for the entire sequence including the gap. This often results in gapped sequences appearing lower in the BLAST report than they would have before.
CAS REGISTRY BLAST continues to provide unique value to searchers by covering sequences from patents as well as journals, and by providing access to records in CAplusSM where the sequences were reported.
STN Express and STN on the Web Releases Enhance Precision of Structure Searching Results and Efficiency
- A maintenance release of STN Express, Version 126.96.36.199, is available on the STN® License and Download Software site
- A new Structure Plug-in is available within STN on the Web
These new releases provide enhanced precision of structure searches involving G-groups, and increase structure search efficiency. We recommend that structure searchers (especially those using STN Express 8.5.2) immediately take advantage of the new releases.
New AUPB Field Supplements Author Information Provided in EmbaseTM, Embase AlertTM, MEDLINE® and SciSearch®
The Embase, Embase Alert, MEDLINE and SciSearch databases each include organizational affiliation (corporate source) data for all authors, as available.
For multi-authored works referenced in these databases, the order in which author names appeared in the original source document is not always evident.
Effective June 29, 2014, the AUPB (Authors in Publication Order) field will provide AUPB data for search and custom display. It has been added to the ALL and IALL formats in each of these databases.
Additional Experimental Spectra Now Available in CAS REGISTRY on STN
Effective May 2014, CAS enhanced its collection of experimental spectra available in CAS REGISTRY. In addition to the 1.3 million experimental spectra already available, CAS added more than 17,000 NMR spectra to CAS REGISTRY. The specific atoms covered are carbon, hydrogen, fluorine, nitrogen and phosphorus. The breakdown is as follows:
Type of Spectra ACD Labs
Carbon-13 NMR >8,900
Proton NMR >5,200
Fluorine-19 NMR ~2,000
Nitrogen-15 NMR >100
Phosphorus-31 NMR ~1,000
The source of the new spectra is ACD Labs.
CAplus Cited References: 400 Million Strong... and Growing!
CAplus has long been a major source of cited reference information. Cited references in CAplus originate from the bibliography at the end of a journal article, as well as from patents, which reference other patents as well as non-patent literature. CAplus recently reached a major milestone when it added its 400 millionth cited reference! Thousands of new cited references are added to CAplus every week. Click here to find more information on CAS coverage of cited references.
Looking at the most frequently cited publications (or articles), we find that many of them discuss what are now standard laboratory protocols and procedures, and tools for scientific data analysis. Their topics include: protein measurement and identification, RNA isolation, and sequence searching. Here are the top ten most cited references, as of June 2014:
1. Title: A rapid and sensitive method for the quantitation of microgram
quantities of protein utilizing the principle of protein-dye binding.
Author: Bradford, Marion M.
Organizational Affiliation: Dep. Biochem., Univ. Georgia,
Athens, GA, USA
Source: Analytical Biochemistry (1976), 72(1-2), 248-54
Number of times cited: 92,854
2. Title: Cleavage of structural proteins during the assembly of the
head of bacteriophage T4.
Author: Laemmli, U. K.
Organizational affiliation: MRC Laboratory of Molecular Biology,
Source: Nature (London, United Kingdom) (1970), 227(5259), 680-
Number of times cited: 79,618
3. Title: Protein measurement with the Folin phenol reagent
Authors: Lowry, Oliver H.; Rosebrough, Nira J.; Farr, A. Lewis;
Randall, Rose J.
Organizational affiliation: Washington Univ., St. Louis, MO
Source: Journal of Biological Chemistry (1951), 193, 265-75
Number of times cited: 60,918
4. Title: Density-functional thermochemistry. III. The role of exact
Author: Becke, Axel D.
Organizational affiliation: Dep. Chem., Queen's Univ.,
Kingston, ON, K7L 3N6, Can.
Source: Journal of Chemical Physics (1993), 98(7), 5648-52
Number of times cited: 49,294
5. Title: Development of the Colle-Salvetti correlation-energy formula
into a functional of the electron density
Authors: Lee, Chengteh; Yang, Weitao; Parr, Robert G.
Organizational affiliation: Dep. Chem., Univ. North Carolina,
Chapel Hill, NC, 27514, USA
Source: Physical Review B: Condensed Matter and Materials
Physics (1988), 37(2), 785-9
Number of times cited: 42,576
6. Title: Generalized gradient approximation made simple
Authors: Perdew, John P.; Burke, Kieron; Ernzerhof, Matthias
Organizational affiliation: Dep. Phys. Quantum Theory Group,
Tulane Univ., New Orleans, LA, 70118, USA
Source: Physical Review Letters (1996), 77(18), 3865-3868
Number of times cited: 37,052
7. Title: Gapped BLAST and PSI-BLAST: a new generation of
protein database search programs
Authors: Altschul, Stephen F.; Madden, Thomas L.;Schaffer,
Alejandro A.; Zhang, Jinghui; Zhang, Zheng; Miller, Webb;
Organizational affiliation: Natl. Cent. Biotechnol. Information,
Natl. Library Med., Natl. Inst.Health, Bethesda, MD, 20894, USA
Source: Nucleic Acids Research (1997), 25(17), 3389-3402
Number of times cited: 35,774
8. Title: CLUSTAL W: improving the sensitivity of progressive multiple
sequence alignment through sequence weighting, position-specific
gap penalties and weight matrix choice
Authors: Thompson, Julie D.; Higgins, Desmond G.; Gibson,
Organizational affiliation: European Molecular Biology laboratory,
Heidelberg, D-69012, Germany
Source: Nucleic Acids Research (1994), 22(22), 4673-80
Number of times cited: 33,197
9. Title: Single-step method of RNA isolation by acid guanidinium
Authors: Chomczynski, Piotr; Sacchi, Nicoletta
Organizational affiliation: Lab. Biochem. Metabol., NIDDK,
Bethesda, MD, 20892, USA
Source: Analytical Biochemistry (1987), 162(1), 156-9
Number of times cited: 32,340
10. Title: Basic local alignment search tool
Authors: Altschul, Stephen F.; Gish, Warren; Miller, Webb;
Myers, Eugene W.; Lipman, David J.
Organizational affiliation: Natl. Cent. Biotechnol. Inf., Natl. Library
Med., Bethesda, MD, 20894, USA
Source: Journal of Molecular Biology (1990), 215(3), 403-10
Number of times cited: 29,977