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1 DAS algorithm (Metabolite Identification via Database Searching).
2 g peptides to be identified by a nontargeted database search.
3 the dual-search approach than with a typical database search.
4 tide filtration in peptide identification by database search.
5 for HCC with MR imaging were identified via database search.
6 of candidate peptides, thus speeding up the database search.
7 /CT for tumor staging were identified from a database search.
8 onal structural descriptor when performing a database search.
9 of possible decoy glycopeptides tested in a database search.
10 s a spectrum-adapted, a posteriori score for database search.
11 nuary 1985 and April 2012 were identified by database search.
12 ng mass spectrometry followed by appropriate database search.
13 entifications of MS/MS spectra returned by a database search.
14 s in children were identified from a MEDLINE database search.
15 roteoform identification through an off-line database search.
16 protein structure prediction, and biological database search.
17 entatively matched to a peptide sequence via database search.
18 being applied to large-scale RNA structural database search.
19 ively improved the accuracy and speed of the database search.
20 after duplicates removed, were found by the database search.
21 structural descriptor used when performing a database search.
22 year include PubMed Labs and a new sequence database search.
23 management of chronic pain were obtained by database search.
24 ntages over methods that are purely based on database search.
25 g the confidence of proteoform IDs after the database search.
26 akes predictions based on iterative sequence database searches.
27 GR-Align, a CMO heuristic that is suited for database searches.
28 tive fragment ions that are reproducible for database searches.
29 Studies were identified by systematic database searches.
30 omain and functional predictions for protein database searches.
31 and made readily accessible to many types of database searches.
32 om the literature, homologous sequences, and database searches.
33 e, accurate mass, elemental composition, and database searches.
34 quid chromatography-tandem MS (LC-MS/MS) and database searching.
35 proach that combines de novo sequencing with database searching.
36 ndem mass spectrometry combined with protein database searching.
37 data suitable for peptide identification via database searching.
38 printing, and protein identification through database searching.
39 tide mixtures were analyzed by LC/MS/MS with database searching.
40 1,485 potentially relevant articles from the databases searched.
41 as a consequence of the poor indexing of the databases searched.
42 original 2326 studies identified through the database search, 38 studies were used to investigate rat
44 modified peptide sequences was achieved by a database search against apo B-100 protein sequences usin
45 inked peptide pair using a fragment ion mass database search against known protein sequences coupled
46 manual confirmation step including a public database search against PubMed and sequence analyses, e.
47 sts of an LC-MS feature-finding algorithm, a database search algorithm, and an interactive results vi
52 ine amino acid composition, (2) an input for database search algorithms, or (3) a basis for de novo s
56 identification of O-GalNAc glycopeptides by database search and (7) quantification of O-GalNAc glyco
57 4077 peptides (2725 modified) identified by database search and 2665 peptides (223 modified) identif
58 tal of 8199 studies were identified from the database search and 30 met the inclusion criteria for th
62 caveats associated with the use of standard database search and error-modeling methods with nonstand
63 tion of the approach based on the MassMatrix database search and LC retention time analysis programs
65 on is demonstrated with test cases including database search and pairwise alignment of protein hydrop
67 h their corresponding amino acid sequence by database search and subsequent MALDI-TOF/TOF analysis.
68 A total of 67 imaged lipids were assigned by database search and, in a number of cases, identified vi
69 ID INSENSITIVE1 (BRI1) is a BR receptor, and database searches and additional genomic sequencing iden
70 G) method, which performs iterative sequence database searches and annotates a query sequence with Ge
73 ion (BioCAn), that combines the results from database searches and in silico fragmentation analyses a
76 provide incremental improvement in structure database searches and initial sequence database searches
77 e data obtained from LC-MS/MS, combined with database searches and protein assembly algorithms, allow
78 eference lists to identify records missed by database searches and publicly available data not yet pu
79 duces a new graphical interface, much faster database searches and several new options for visualizat
80 de) was discovered by using 3D pharmacophore database searches and was biologically confirmed as a ne
83 olve hard problems, such as prime factoring, database searching and quantum simulation, at the cost o
86 spectra can be identified with conventional database-searching and protein-inference tools, allowing
87 built from the identification results from a database search, and then, the library is used to resear
88 n array of 1D/2D NMR experiments at 800 MHz, database searches, and spiking with authentic compounds
94 ation methods, including chemical similarity database searches, are limited to single or sequential l
97 ategies were undertaken in July-August 2016: database searching, backwards citation searching and for
98 dem mass spectrometry improves confidence in database search-based peptide identification and facilit
99 oid adducts were not identified in MS2-based database searches because collision-induced adduct loss
102 ed complete eukaryotic genomes, we conducted database searching by hidden Markov models, multiple seq
103 Expression of AFP was investigated using database searches, by qPCR, and by immunohistochemistry
104 ecent years, the current methods for peptide database searching cannot rapidly and thoroughly process
106 tivities and specificities were achieved for database searches carried out with MassMatrix, Mascot an
108 demonstrate how MSFragger empowers the open database search concept for comprehensive identification
109 genetics, based on PubMed and Web of Science database searches conducted according to the PRISMA guid
111 alk-throughs (n = 5), focus groups (n = 31), database searches, context questionnaires (n = 8), famil
113 "Serac") that consumes results of the Mascot database search engine and identifies the amino acids va
116 lementary hardware realization of a parallel database search engine that, when running on a Xilinx Vi
117 , MPA Portable now supports state-of-the-art database search engines and a convenient command line in
119 nt peptide sequence identification by common database search engines, MAGIC generates in silico spect
120 gh-throughput experiments, mass spectrometry database search engines, such as MASCOT provide a ranked
121 were systematically collected through large database searches, filtered through methodological inclu
124 ntified via a pathology and dermatopathology database search for patients diagnosed as having high-ri
125 upporting various functionalities, including database search for protein and peptide identification,
133 y analysis using high-precision instruments, database searching for the addition of N-terminal argini
134 ell can be queried with a tap, and community databases searched for available information about that
135 FASD using multiple electronic bibliographic databases, searching for studies published up to July, 2
136 rary, and relevant reviews identified by our database search, for research published from Jan 1, 1972
138 d, PsychINFO, Cochrane Library, and the TRIP Database, searched from January 1, 2000, to February 26,
140 rom MS/MS spectra are identified by means of database searches, given samples with known genome-wide
144 s of glycopeptide identification by a direct database search have been reported, false positives rema
145 cture database searches and initial sequence database searches; however, the enhancements show signif
148 y thought to be a unique protein, a proteome database search identified at least 46 bacterial CooJ ho
152 in scope to peptides that are identified by database searching in the first step, all MS data are co
156 or putatively identified based on metabolome database searches, including 20 pairs positively identif
158 e discovery rate (FDR) from the target-decoy database search is typically deployed to filter identifi
163 nsistent and unified approach to de novo and database-search methods, which is a distinctive feature
164 ormance similar to that of other de novo and database-search methods, which is reasonable, given the
169 incorporating variable modifications in the database search of GlycoPep DB enhances glycopeptide cov
174 tified with mass spectrometry by independent database search of spectra associated with the two linke
178 e systematically obtained through electronic database searches of PubMed/MEDLINE, PsycINFO, Web of Sc
181 high-throughput molecular identification via database searching of standard libraries is briefly disc
182 ransthyretin) were confidently identified by database searching of the acquired tandem spectra from p
183 of the PubMed, EMBASE, PsycINFO and Cochrane databases, search of reference lists and conference abst
184 We identified 8632 articles through our database search, of which 515 were eligible for full-tex
186 regulation of OPG expression, we conducted a database search on regulatory elements in the promoter r
187 ation of intact protein species, and perform database search online to yield real-time protein identi
188 pattern sets, maximize their sensitivity in database searching or minimize the variance of the numbe
191 Individual metabolites can be identified via database searching or, in the case of novel compounds, t
192 raries (CPLLs), SDS-PAGE, nLC-ESI-MS/MS, and database search, permitted identifying 175 proteins.
194 data and the identification of SAPs through database searching, post-processing and generation of HT
196 e mutations were identified by expanding the database search process of raw mass spectrometry files b
200 plays an important role in protein sequence database search, protein structure prediction, protein f
202 mbing algorithm to optimize pattern sets for database searching, read mapping and alignment-free sequ
204 c stroke neuroprotection based on electronic database searches, references of previous publications,
205 tion of the UVPD-MS method with an in silico database search restricted to Tyr- and His-containing pe
207 ed application of the AAC information during database searching resulted in an average 3.5-fold highe
208 e a wide range of proteomics data, including database search results, de novo sequencing results, pro
209 Since PFP and ESG are based on sequence database search results, our analyses are not only usefu
224 del used to rank the similarities found in a database search, so that biologically relevant relations
226 id composition (AAC) ions is to restrict the database search space and provide identification of pept
227 web interfaces for analyses such as sequence database search, statistical validation, and quantitatio
228 ata and a cross-validation with conventional database search strategies, we identified approximately
229 omposing a given unknown mixture, a two-step database search strategy for bottom-up nanoscale liquid
232 he UVPD fragmentation patterns, an automated database searching strategy (based on the MassMatrix alg
234 night tryptic digestion, sample analysis and database searching, takes approximately 24 h to complete
235 ned peptides using an ultra-tolerant Sequest database search that allows peptide matching even with m
237 ns, we systematically searched peer-reviewed databases, searched the grey literature, and disseminate
238 n the mass spectrometer per se and following database searching, the matching of the molecular masses
239 ding time spent acquiring data, and time for database searching, the procedure takes approximately 1-
240 o the complexity of MS/MS data and the large databases searched, the accuracy of peptide identificati
242 dies (enrolling 2625 patients) identified by database searches through January 2012 were included.
245 ranging from ultra-fast low-RAM k-mer-based database search to fully exhaustive gapped DNA alignment
248 y with isobaric tagging (iTRAQ) and multiple database searching to identify proteins that were differ
250 (HS-BLASTN), a parallel and fast nucleotide database search tool that accelerates MegaBLAST--the def
253 (it identifies more peptides than most other database search tools) and universal (it works well for
258 8 NCBI RefSeq genomes in 33 CPU h; real-time database search using assembled or unassembled Illumina,
261 d matrix by mass spectrometry and subsequent database searching using an O. beta transcriptomic seque
262 ative metabolites are then assigned based on database searching using both m/ z and C/N atom counts.
263 v2.0 was developed to perform unconstrained database searching using high-resolution tandem mass spe
270 ND By incorporating extensive literature and database searches, we designed a collection of TALEN con
284 tudies, the conventional approach involves a database search, wherein chemical shifts are assigned to
286 technologies, namely, mass spectrometry and database searching, which drove protein analysis from 1
287 by tryptic digestion, mass spectrometry, and database searching, which we enhance using isotope label
289 tides from AXL, triple the number found by a database search with Byonic software, and detected incor
290 collision-induced dissociation data into the database searches with ETD data may prove decisive in mo
291 resulting identifications while controlling database searches with robust and reproducible TDA estim
292 the reference sequence database in proteomic database searching with a customized protein database th
293 arily identified using biomedical literature database searches, with additional studies added at the
294 arily identified using biomedical literature database searches, with additional studies added at the