MLBio+Laboratory Machine Learning in Biomedical Informatics

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Volatile Organic Compounds/*analysis

Solid-phase microextraction and the human fecal VOC metabolome., Dixon, Emma, Clubb Cynthia, Pittman Sara, Ammann Larry, Rasheed Zeehasham, Kazmi Nazia, Keshavarzian Ali, Gillevet Pat, Rangwala Huzefa, and Couch Robin D. , PLoS One, Volume 6, Number 4, Department of Chemistry and Biochemistry, George Mason University, Manassas, Virginia, United States of America., p.e18471, (2011) Abstract

Vaginosis

Analysis of multitag pyrosequence data from human cervical lavage samples., Naqvi, Ammar, Rangwala Huzefa, Spear Greg, and Gillevet Patrick , Chem Biodivers, Volume 7, Number 5, Microbiome Analysis Center, Manassas, VA 20110, USA., p.1076–1085, (2010) Abstract

Time Factors

Solid-phase microextraction and the human fecal VOC metabolome., Dixon, Emma, Clubb Cynthia, Pittman Sara, Ammann Larry, Rasheed Zeehasham, Kazmi Nazia, Keshavarzian Ali, Gillevet Pat, Rangwala Huzefa, and Couch Robin D. , PLoS One, Volume 6, Number 4, Department of Chemistry and Biochemistry, George Mason University, Manassas, Virginia, United States of America., p.e18471, (2011) Abstract

Therapeutic Irrigation

Analysis of multitag pyrosequence data from human cervical lavage samples., Naqvi, Ammar, Rangwala Huzefa, Spear Greg, and Gillevet Patrick , Chem Biodivers, Volume 7, Number 5, Microbiome Analysis Center, Manassas, VA 20110, USA., p.1076–1085, (2010) Abstract

Tertiary

Improving homology models for protein-ligand binding sites., Kauffman, Chris, Rangwala Huzefa, and Karypis George , Comput Syst Bioinformatics Conf, Volume 7, Department of Computer Science, University of Minnesota, 117 Pleasant St SE, Room 464, Minneapolis, MN 55455, USA. kauffman@cs.umn.edu, p.211–222, (2008) Abstract

Surface Properties

fRMSDPred: predicting local RMSD between structural fragments using sequence information., Rangwala, Huzefa, and Karypis George , Comput Syst Bioinformatics Conf, Volume 6, Computer Science & Engineering, University of Minnesota, Minneapolis, MN 55455, USA. rangwala@cs.umn.edu, p.311–322, (2007) Abstract

Structure-Activity Relationship

Multi-assay-based structure-activity relationship models: improving structure-activity relationship models by incorporating activity information from related targets., Ning, Xia, Rangwala Huzefa, and Karypis George , J Chem Inf Model, Volume 49, Number 11, Department of Computer Science and Computer Engineering, University of Minnesota, 4-192 EE/CS Building, 200 Union Street SE, Minneapolis, Minnesota 55455, USA. xning@cs.umn.edu, p.2444–2456, (2009) Abstract

Sterilization

Solid-phase microextraction and the human fecal VOC metabolome., Dixon, Emma, Clubb Cynthia, Pittman Sara, Ammann Larry, Rasheed Zeehasham, Kazmi Nazia, Keshavarzian Ali, Gillevet Pat, Rangwala Huzefa, and Couch Robin D. , PLoS One, Volume 6, Number 4, Department of Chemistry and Biochemistry, George Mason University, Manassas, Virginia, United States of America., p.e18471, (2011) Abstract

Statistical

fRMSDPred: predicting local RMSD between structural fragments using sequence information., Rangwala, Huzefa, and Karypis George , Comput Syst Bioinformatics Conf, Volume 6, Computer Science & Engineering, University of Minnesota, Minneapolis, MN 55455, USA. rangwala@cs.umn.edu, p.311–322, (2007) Abstract

Profile-based direct kernels for remote homology detection and fold recognition., Rangwala, Huzefa, and Karypis George , Bioinformatics, Volume 21, Number 23, Department of Computer Science and Engineering, University of Minnesota Minneapolis, MN 55455, USA., p.4239–4247, (2005) Abstract

Solid Phase Microextraction/*methods

Solid-phase microextraction and the human fecal VOC metabolome., Dixon, Emma, Clubb Cynthia, Pittman Sara, Ammann Larry, Rasheed Zeehasham, Kazmi Nazia, Keshavarzian Ali, Gillevet Pat, Rangwala Huzefa, and Couch Robin D. , PLoS One, Volume 6, Number 4, Department of Chemistry and Biochemistry, George Mason University, Manassas, Virginia, United States of America., p.e18471, (2011) Abstract

Software

Profile-based direct kernels for remote homology detection and fold recognition., Rangwala, Huzefa, and Karypis George , Bioinformatics, Volume 21, Number 23, Department of Computer Science and Engineering, University of Minnesota Minneapolis, MN 55455, USA., p.4239–4247, (2005) Abstract

Sequence Homology

Improving homology models for protein-ligand binding sites., Kauffman, Chris, Rangwala Huzefa, and Karypis George , Comput Syst Bioinformatics Conf, Volume 7, Department of Computer Science, University of Minnesota, 117 Pleasant St SE, Room 464, Minneapolis, MN 55455, USA. kauffman@cs.umn.edu, p.211–222, (2008) Abstract

sequence classification

A Family of Feed-forward Models for Protein Sequence Classification, Blasiak, Sam, Rangwala Huzefa, and Laskey Kathryn B. , Proceedings of the European Conference on Machine Learning and Principles of Knowledge Discovery and Data Mining (ECML-PKDD), 09/2012, Number 2, Bristol, UK, p.419--434, (2012)

Sequence Analysis

Incremental window-based protein sequence alignment algorithms., Rangwala, Huzefa, and Karypis George , Bioinformatics, Volume 23, Number 2, Department of Computer Science & Engineering, University of Minnesota Minneapolis, MN 55455, USA. rangwala@cs.umn.edu, p.e17-23, (2007) Abstract

Building multiclass classifiers for remote homology detection and fold recognition., Rangwala, Huzefa, and Karypis George , BMC Bioinformatics, Volume 7, Department of Computer Science & Engineering, University of Minnesota, Minneapolis, Minnesota, USA. rangwala@cs.umn.edu, p.455, (2006) Abstract

svmPRAT: SVM-based protein residue annotation toolkit., Rangwala, Huzefa, Kauffman Christopher, and Karypis George , BMC Bioinformatics, Volume 10, Computer Science Department, George Mason University, Fairfax, VA, USA. rangwala@cs.gmu.edu, p.439, (2009) Abstract

Profile-based direct kernels for remote homology detection and fold recognition., Rangwala, Huzefa, and Karypis George , Bioinformatics, Volume 21, Number 23, Department of Computer Science and Engineering, University of Minnesota Minneapolis, MN 55455, USA., p.4239–4247, (2005) Abstract

Improving homology models for protein-ligand binding sites., Kauffman, Chris, Rangwala Huzefa, and Karypis George , Comput Syst Bioinformatics Conf, Volume 7, Department of Computer Science, University of Minnesota, 117 Pleasant St SE, Room 464, Minneapolis, MN 55455, USA. kauffman@cs.umn.edu, p.211–222, (2008) Abstract

fRMSDPred: predicting local RMSD between structural fragments using sequence information., Rangwala, Huzefa, and Karypis George , Comput Syst Bioinformatics Conf, Volume 6, Computer Science & Engineering, University of Minnesota, Minneapolis, MN 55455, USA. rangwala@cs.umn.edu, p.311–322, (2007) Abstract

Sequence Alignment/*methods

Incremental window-based protein sequence alignment algorithms., Rangwala, Huzefa, and Karypis George , Bioinformatics, Volume 23, Number 2, Department of Computer Science & Engineering, University of Minnesota Minneapolis, MN 55455, USA. rangwala@cs.umn.edu, p.e17-23, (2007) Abstract

Improving homology models for protein-ligand binding sites., Kauffman, Chris, Rangwala Huzefa, and Karypis George , Comput Syst Bioinformatics Conf, Volume 7, Department of Computer Science, University of Minnesota, 117 Pleasant St SE, Room 464, Minneapolis, MN 55455, USA. kauffman@cs.umn.edu, p.211–222, (2008) Abstract

Sequence Alignment

fRMSDPred: predicting local RMSD between structural fragments using sequence information., Rangwala, Huzefa, and Karypis George , Proteins, Volume 72, Number 3, Computer Science and Engineering, University of Minnesota, Minneapolis, Minnesota 55455, USA. rangwala@cs.umn.edu, p.1005–1018, (2008) Abstract

Profile-based direct kernels for remote homology detection and fold recognition., Rangwala, Huzefa, and Karypis George , Bioinformatics, Volume 21, Number 23, Department of Computer Science and Engineering, University of Minnesota Minneapolis, MN 55455, USA., p.4239–4247, (2005) Abstract

secondary-structure prediction

Knowledge Discovery in Bioinformatics: Techniques, Methods, and Applications, Rangwala, Huzefa, DeRonne Kevin, and Karypis George , Knowledge Discovery in Bioinformatics, p.145–168, (2007)