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Eliminating redundancy among protein sequences using submodular optimization

https://doi.org/10.1101/051201
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Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/pro.5560010313openalex-snapshot
Selection of representative protein data sets
inferredcites →https://doi.org/10.1007/978-3-642-68874-4openalex-snapshot
Mathematical Programming the State of the Art: Bonn 1982
inferredcites →https://doi.org/10.1007/978-3-642-68874-4_10openalex-snapshot
Submodular functions and convexity
inferredcites →https://doi.org/10.1007/bf01588971openalex-snapshot
An analysis of approximations for maximizing submodular set functions—I
inferredcites →https://doi.org/10.1007/bf01753431openalex-snapshot
Cores of convex games
inferredcites →https://doi.org/10.1007/bfb0006528openalex-snapshot
Accelerated greedy algorithms for maximizing submodular set functions
inferredcites →https://doi.org/10.1007/bfb0121195openalex-snapshot
An analysis of approximations for maximizing submodular set functions—II
inferredcites →https://doi.org/10.1016/s0022-2836(05)80134-2openalex-snapshot
SCOP: A structural classification of proteins database for the investigation of sequences and structures
inferredcites →https://doi.org/10.1016/s0022-2836(05)80360-2openalex-snapshot
Basic Local Alignment Search Tool
inferredcites →https://doi.org/10.1016/s0167-5060(08)70678-2openalex-snapshot
Chapter 9 Submodular Functions
inferredcites →https://doi.org/10.1016/s0168-9525(00)02024-2openalex-snapshot
EMBOSS: The European Molecular Biology Open Software Suite
inferredcites →https://doi.org/10.1038/nature11234openalex-snapshot
Structure, function and diversity of the healthy human microbiome
inferredcites →https://doi.org/10.1073/pnas.0308067101openalex-snapshot
Protein ranking: From local to global structure in the protein similarity network
inferredcites →https://doi.org/10.1093/bioinformatics/14.5.423openalex-snapshot
Removing near-neighbour redundancy from large protein sequence collections.
inferredcites →https://doi.org/10.1093/bioinformatics/14.9.783openalex-snapshot
Domain identification by clustering sequence alignments.
inferredcites →https://doi.org/10.1093/bioinformatics/16.5.451openalex-snapshot
GeneRAGE: a robust algorithm for sequence clustering and domain detection
inferredcites →https://doi.org/10.1093/bioinformatics/17.3.282openalex-snapshot
Clustering of highly homologous sequences to reduce the size of large protein databases
inferredcites →https://doi.org/10.1093/bioinformatics/8.5.461openalex-snapshot
Clustering cDNA sequences
inferredcites →https://doi.org/10.1093/bioinformatics/btg224openalex-snapshot
PISCES: a protein sequence culling server
inferredcites →https://doi.org/10.1093/bioinformatics/btl158openalex-snapshot
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
inferredcites →https://doi.org/10.1093/bioinformatics/btq461openalex-snapshot
Search and clustering orders of magnitude faster than BLAST
inferredcites →https://doi.org/10.1093/nar/25.17.3389openalex-snapshot
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
inferredcites →https://doi.org/10.1093/nar/28.1.254openalex-snapshot
The ASTRAL compendium for protein structure and sequence analysis
inferredcites →https://doi.org/10.1093/nar/30.7.1575openalex-snapshot
An efficient algorithm for large-scale detection of protein families
inferredcites →https://doi.org/10.1093/nar/gkj515openalex-snapshot
Spectral clustering of protein sequences
inferredcites →https://doi.org/10.1109/focs.2012.73openalex-snapshot
A Tight Linear Time (1/2)-Approximation for Unconstrained Submodular Maximization
inferredcites →https://doi.org/10.1109/icassp.2013.6639057openalex-snapshot
Submodular feature selection for high-dimensional acoustic score spaces
inferredcites →https://doi.org/10.1109/icassp.2014.6854213openalex-snapshot
Submodular subset selection for large-scale speech training data
inferredcites →https://doi.org/10.1109/icde.2003.1260785openalex-snapshot
CLUSEQ: efficient and effective sequence clustering
inferredcites →https://doi.org/10.1137/090779346openalex-snapshot
Maximizing Non-monotone Submodular Functions
inferredcites →https://doi.org/10.1145/285055.285059openalex-snapshot
A threshold of ln n for approximating set cover
inferredcites →https://doi.org/10.1515/9781400822539openalex-snapshot
Supermodularity and Complementarity
inferredcites →https://doi.org/10.3115/v1/d14-1014openalex-snapshot
Submodularity for Data Selection in Machine Translation
inferredcites →https://doi.org/10.48550/arxiv.1210.4871openalex-snapshot
Learning Mixtures of Submodular Shells with Application to Document Summarization
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