Database of homology‐derived protein structures and the structural meaning of sequence alignment
By Christopher Sander, Reinhard Schneider. 1991
Subfields: Computational Biology & Bioinformatics
How researchers see this paper
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In Computational Biology & Bioinformatics
- Burkhard Rost
- Thomas G. Dietterich
- David Baker
- Christopher Sander
- Geoffrey J. Barton
- Jinfeng Liu
- Avner Schlessinger
- Yanay Ofran
Citations in the corpus
- Better prediction of functional effects for sequence variants (2015, neutral): “We retrieved all enzyme pairs with pairwise sequence identity >40% and HSSPvalues>0 [28-30].”
- Predicting the functional impact of protein mutations: application to cancer genomics (2011, methodology): “With these assumptions, we use the entropy of the residue distribution in an alignment column as a measure of residue conservation (47) and estimate the mutation impact using the difference of the entropy caused by the mutation.”
- Distributed Multi-Task Learning (2015, neutral): “The task is to predict the protein secondary structure [Sander and Schneider, 1991].”
- Predicting functionally important residues from sequence conservation (2007, background): “Shannon entropy of residues: SE (Cover and Thomas, 1991) is one of the simplest and most common measures of conservation at a site (Sander and Schneider, 1991; Shenkin et al., 1991).”
- Twilight zone of protein sequence alignments. (1999, methodology): “Thus, one of the most important messages of this analysis might be the repetition of a point made by others (Sander and Schneider, 1991): high levels of sequence similarity or identity donot ascertain structural similarity (Figure 5).”
- Transmembrane helices predicted at 95% accuracy (1995, methodology): “Second, the list of putative homologues was re-examined with a more sensitive profile-based multiple alignment method (MaxHom, Sander & Schneider, 1991).”
- Enlarged representative set of protein structures (1994, background): “…read from the Diskette Appendix or can be downloaded together with related data (DSSP secondary structures [Kabsch &Sander, 19831; HSSP sequence families [Sander & Schneider, 1991 1; and FSSP structure families [Holm et al., 19921) using internet file transfer from ftp.embl-heidelberg. de…”
- Empirical profile mixture models for phylogenetic reconstruction (2008, methodology): “Models were estimated on a subset of the HSSP database (Sander and Schneider, 1991).”