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Banu Dost

dblp:71/4333 · DBLP profile ↗
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4ranked-venue papers
4as first author
0since 2021 · last 2011
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 4 · 4 first-author

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
3 papers
Bioinformatics and computational biology · 100%
Theoretical computer science
1 paper
Algorithms and data structures · 100%

Topics — the 8 heaviest of 10, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology › proteomics
mass spectrometry data analysis
0.112009
Shared Peptides in Mass Spectrometry Based Protein Quantification · RECOMB 2009
Bioinformatics and computational biology › proteomics
protein quantification
0.112009
Shared Peptides in Mass Spectrometry Based Protein Quantification · RECOMB 2009
Bioinformatics and computational biology
proteomics
0.112009
Shared Peptides in Mass Spectrometry Based Protein Quantification · RECOMB 2009
Bioinformatics and computational biology › network bioinformatics › biological network analysis › subnetwork detection
network querying
0.112007
QNet: A Tool for Querying Protein Interaction Networks · RECOMB 2007
Bioinformatics and computational biology › protein analysis › protein-protein interaction
protein-protein interaction network
0.112007
QNet: A Tool for Querying Protein Interaction Networks · RECOMB 2007
Bioinformatics and computational biology › genomics
computational genomics
0.112006
Structural Alignment of Pseudoknotted RNA · RECOMB 2006
Bioinformatics and computational biology › RNA biology › RNA analysis › RNA bioinformatics
RNA structure
0.112006
Structural Alignment of Pseudoknotted RNA · RECOMB 2006
Algorithms and data structures › sequence algorithms › string algorithms
sequence alignment
0.112006
Structural Alignment of Pseudoknotted RNA · RECOMB 2006

Methods — techniques the papers use, named apart from their topics

dynamic programming · 0.1shared peptide analysis · 0.1graph matching · 0.1
YearPublicationVenuePosition
2011 TCLUST: A Fast Method for Clustering Genome-Scale Expression Data
abstract
Genes with a common function are often hypothesized to have correlated expression levels in mRNA expression data, motivating the development of clustering algorithms for gene expression data sets. We observe that existing approaches do not scale well for large data sets, and indeed did not converge for the data set considered here. We present a novel clustering method TCLUST that exploits coconnectedness to efficiently cluster large, sparse expression data. We compare our approach with two existing clustering methods CAST and K-means which have been previously applied to clustering of gene-expression data with good performance results. Using a number of metrics, TCLUST is shown to be superior to or at least competitive with the other methods, while being much faster. We have applied this clustering algorithm to a genome-scale gene-expression data set and used gene set enrichment analysis to discover highly significant biological clusters. (Source code for TCLUST is downloadable at http://www.cse.ucsd.edu/~bdost/tclust.)
Banu Dost, Chunlei Wu, Andrew I. Su, Vineet Bafna
IEEE ACM Trans. Comput. Biol. Bioinform.1
2009 Shared Peptides in Mass Spectrometry Based Protein Quantification
Banu Dost, Nuno Bandeira, Zhouxin Shen, Steve Briggs, Vineet Bafna
RECOMB1
2007 QNet: A Tool for Querying Protein Interaction Networks
Banu Dost, Tomer Shlomi, Nitin Gupta 0002, Eytan Ruppin, Vineet Bafna, Roded Sharan
RECOMB1
2006 Structural Alignment of Pseudoknotted RNA
Banu Dost, Buhm Han, Shaojie Zhang 0001, Vineet Bafna
RECOMB1