BIOINFORMATICS ORIGINAL PAPER (2008)
Gene Expression, Earl F. Glynn, Jie Chen, Arcady R. Mushegian
Vol. 22 no. 3 2006, pages 310–316 doi:10.1093/bioinformatics/bti789 Detecting periodic patterns in unevenly spaced gene expression time series using Lomb–Scargle periodograms
from phylogenetically diverse model organisms (2007)
Jessica Rennert, James A Coffman, Arcady R Mushegian, Anthony J Robertson, Anthony J Robertson
The evolution of Runx genes I. A comparative study of sequences
Cluster Worst Middle Least Clinical Survey Data (2006)
Earl F. Glynn, Chris Seidel, Arcady R. Mushegian, Hua Li, Frank Emmert-streib, Jie Chen, ...
Most severely ill: “lowest SF-36; highest MFI...” Intermediate CFS Description Least severely ill: “scores essentially reflected population norms.”
Glynn, Earl F., Chen, Jie, Mushegian, Arcady R.
Motivation: Periodic patterns in time series resulting from biological experiments are of great interest. The commonly used Fast Fourier Transform (FFT) algorithm is applicable only when data are...
Natural history of S-adenosylmethionine-binding proteins (2005)
Kozbial, Piotr Z, Mushegian, Arcady R
Abstract Background S -adenosylmethionine is a source of diverse chemical groups used in biosynthesis and modification of virtually every class of biomolecules. The most notable reaction requiring S...
Glynn, Earl F., Chen, Jie, Mushegian, Arcady R.
Motivation: Periodic patterns in time series resulting from biological experiments are of great interest. The commonly used Fast Fourier Transform algorithm is applicable only when data are evenly...
Glazko, Galina V, Mushegian, Arcady R
Abstract Background Phyletic patterns denote the presence and absence of orthologous genes in completely sequenced genomes and are used to infer functional links between genes, on the assumption that...
2004 Glazko Volume and 5, Issue Mushegian 5, Article R32 Open Access (2004)
Galina V Glazko, Arcady R Mushegian
Detection of evolutionarily stable fragments of cellular pathways by hierarchical clustering of phyletic patterns
Melko, O. Michael, Mushegian, Arcady R.
Motivation: Hybridization of oligonucleotides with longer nucleotide sequences is an essential step in nucleic acid biosynthesis in vitro and in vivo, in oligonucleotide-based diagnostics, and in...
Rennert, Jessica, Coffman, James A, Mushegian, Arcady R, Robertson, Anthony J
Abstract Background Runx genes encode proteins defined by the highly conserved Runt DNA-binding domain. Studies of Runx genes and proteins in model organisms indicate that they are key...
Iyer, Lakshminarayan M, Aravind, L, Bork, Peer, Hofmann, Kay, Mushegian, Arcady R, Zhulin, Igor B, ...
Abstract Background Computational predictions are critical for directing the experimental study of protein functions. Therefore it is paradoxical when an apparently erroneous computational prediction...
Positionally cloned human disease genes: Patterns of evolutionary conservation and functional motifs
Mushegian, Arcady R., Bassett, Douglas E., Boguski, Mark S., Bork, Peer, Koonin, Eugene V.
Positional cloning has already produced the sequences of more than 70 human genes associated with specific diseases. In addition to their medical importance, these genes are of interest as a set of...
Iyer, Lakshminarayan M, Aravind, L, Bork, Peer, Hofmann, Kay, Mushegian, Arcady R, Zhulin, Igor B, ...
Functional Specialization and Evolution of Leader Proteinases in the Family Closteroviridae
Peng, Chih-Wen, Peremyslov, Valera V., Mushegian, Arcady R., Dawson, William O., Dolja, Valerian V.
Members of the Closteroviridae and Potyviridae families of the plant positive-strand RNA viruses encode one or two papain-like leader proteinases. In addition to a C-terminal proteolytic domain, each...
Golden, Teresa A., Schauer, Stephen E., Lang, Jean D., Pien, Stéphane, Mushegian, Arcady R., Grossniklaus, Ueli, ...
The importance of maternal cells in controlling early embryogenesis is well understood in animal development, yet in plants the precise role of maternal cells in embryogenesis is unclear. We...
Glazko, Galina V, Mushegian, Arcady R
A hierarchy of 3,688 phyletic patterns was characterized encompassing more than 5,000 known protein-coding genes from 66 complete microbial genomes. The results indicate that gene loss and...
Positionally cloned human disease genes: Patterns of evolutionary conservation and functional motifs
Mushegian, Arcady R., Bassett, Douglas E., Boguski, Mark S., Bork, Peer, Koonin, Eugene V.
Positional cloning has already produced the sequences of more than 70 human genes associated with specific diseases. In addition to their medical importance, these genes are of interest as a set of...
Iyer, Lakshminarayan M, Aravind, L, Bork, Peer, Hofmann, Kay, Mushegian, Arcady R, Zhulin, Igor B, ...
Functional Specialization and Evolution of Leader Proteinases in the Family Closteroviridae
Peng, Chih-Wen, Peremyslov, Valera V., Mushegian, Arcady R., Dawson, William O., Dolja, Valerian V.
Members of the Closteroviridae and Potyviridae families of the plant positive-strand RNA viruses encode one or two papain-like leader proteinases. In addition to a C-terminal proteolytic domain, each...
Golden, Teresa A., Schauer, Stephen E., Lang, Jean D., Pien, Stéphane, Mushegian, Arcady R., Grossniklaus, Ueli, ...
The importance of maternal cells in controlling early embryogenesis is well understood in animal development, yet in plants the precise role of maternal cells in embryogenesis is unclear. We...
Glazko, Galina V, Mushegian, Arcady R
A hierarchy of 3,688 phyletic patterns was characterized encompassing more than 5,000 known protein-coding genes from 66 complete microbial genomes. The results indicate that gene loss and...
Comparison of Pattern Detection Methods in Microarray Time Series of the Segmentation Clock
Dequéant, Mary-Lee, Ahnert, Sebastian, Edelsbrunner, Herbert, Fink, Thomas M. A., Glynn, Earl F., Hattem, Gaye, ...
While genome-wide gene expression data are generated at an increasing rate, the repertoire of approaches for pattern discovery in these data is still limited. Identifying subtle patterns of interest...