TANDEM: matching proteins with tandem mass spectra.

By R. Craig, Ronald C. Beavis. Bioinformatics, 2004

2,521 citations recorded by the source corpus.

Subfields: Molecular Biology, Spectroscopy

View Paper: https://www.semanticscholar.org/paper/1b03414ebace3aae831362dc3ab07619e1ecb36f

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Citations in the corpus

A Guided Tour of the Trans-Proteomic Pipeline (2010, methodology): “These files are run through one or more search engines such as X!Tandem [10], Mascot [11], SEQUEST [12], or SpectraST [13], and the results are converted to the pepXML [7] file format.”
Less label, more free: Approaches in label‐free quantitative mass spectrometry (2011, methodology): “EmPAI Calc accepts data from MASCOT search results and also result files that have been converted into a comma-separated value file format, which is suitable for data derived from other database search platforms such as SEQUEST [28] and X!TANDEM [29].”
A HUPO test sample study reveals common problems in mass spectrometry-based proteomics (2009, positive): “We reanalyzed the collective raw data centrally using a uniform protocol of database searching using X! Tande”
Universal database search tool for proteomics (2014, neutral): “This simple ‘dot-product’ scoring model contrasts with many other database search 2,4,27,28 and re-scoring 9,10 tools, using sophisticated scoring functions that often make it difﬁcult to satisfy the third condition.”
MSFragger: ultrafast and comprehensive peptide identification in shotgun proteomics (2017, background): “…of computational strategies have been developed to detect such peptides including multistep database search 9,10 , curated modifications search 9,11 , spectral-pair based methods screening for modified versions of peptides initially identified in unmodified form 12–15 , sequence tagging 16–20…”
SQANTI: extensive characterization of long-read transcript sequences for quality control in full-length transcriptome identification and quantification (2017, neutral): “Tandem 75 , Myrimatch 76 and MSGF+ 77”
The Paragon Algorithm, a Next Generation Search Engine That Uses Sequence Temperature Values and Feature Probabilities to Identify Peptides from Tandem Mass Spectra*S (2007, methodology): “Tandem (21, 38) can perform multiple rounds of refinement, and tools like the Mascot Daemon (Matrix Science) allow the user to define complex iterative strategies to do things like filter spectra that have been identified with sufficiently high confidence and search multiple databases.”