کد مقاله | کد نشریه | سال انتشار | مقاله انگلیسی | نسخه تمام متن |
---|---|---|---|---|
10826572 | 1064796 | 2005 | 14 صفحه PDF | دانلود رایگان |
عنوان انگلیسی مقاله ISI
Informatics for protein identification by mass spectrometry
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کلمات کلیدی
Peptide mass fingerprinting - اثر انگشت پپتیدهBioinformatics - بیوانفورماتیک Peptide sequencing - توالی پپتیدهhomology search - جستجوی هماهنگیDatabase search - جستجوی پایگاه دادهde novo sequencing - دوباره توالیProtein identification - شناسایی پروتئینTandem mass spectrometry - طیف سنجی جرمی پشت سر هم یا متوالیProteomics - پروتئومیکس
موضوعات مرتبط
علوم زیستی و بیوفناوری
بیوشیمی، ژنتیک و زیست شناسی مولکولی
زیست شیمی
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چکیده انگلیسی
High throughput protein analysis (i.e., proteomics) first became possible when sensitive peptide mass mapping techniques were developed, thereby allowing for the possibility of identifying and cataloging most 2D gel electrophoresis spots. Shortly thereafter a few groups pioneered the idea of identifying proteins by using peptide tandem mass spectra to search protein sequence databases. Hence, it became possible to identify proteins from very complex mixtures. One drawback to these latter techniques is that it is not entirely straightforward to make matches using tandem mass spectra of peptides that are modified or have sequences that differ slightly from what is present in the sequence database that is being searched. This has been part of the motivation behind automated de novo sequencing programs that attempt to derive a peptide sequence regardless of its presence in a sequence database. The sequence candidates thus generated are then subjected to homology-based database search programs (e.g., BLAST or FASTA). These homology search programs, however, were not developed with mass spectrometry in mind, and it became necessary to make minor modifications such that mass spectrometric ambiguities can be taken into account when comparing query and database sequences. Finally, this review will discuss the important issue of validating protein identifications. All of the search programs will produce a top ranked answer; however, only the credulous are willing to accept them carte blanche.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Methods - Volume 35, Issue 3, March 2005, Pages 223-236
Journal: Methods - Volume 35, Issue 3, March 2005, Pages 223-236
نویسندگان
Richard S. Johnson, Michael T. Davis, J. Alex Taylor, Scott D. Patterson,