ESTPiper – a web-based analysis pipeline for expressed sequence tags (2009)
Tang, Zuojian, Choi, Jeong-Hyeon, Hemmerich, Chris, Sarangi, Ankita, Colbourne, John K, Dong, Qunfeng
Abstract Background EST sequencing projects are increasing in scale and scope as the genome sequencing technologies migrate from core sequencing centers to individual research laboratories....
Load Balancing in Large-Scale RFID Systems (2009)
Qunfeng Dong, Ashutosh Shukla, Vivek Shrivastava, Dheeraj Agrawal, Suman Banerjee, Koushik Kar
Abstract—A radio frequency identifier (RFID) system consists of inexpensive, uniquely-identifiable tags that are mounted on physical objects, and readers that track these tags (and hence these...
RICHEST - a web server for richness estimation in biological data (2009)
Richness is defined as the number of distinct species or classes in a sample or population. Although richness estimation is an important practice, it requires mathematical and computational methods...
WebGBrowse--a web server for GBrowse (2009)
Podicheti, Ram, Gollapudi, Rajesh, Dong, Qunfeng
Summary: The Generic Genome Browser (GBrowse) is one of the most widely used tools for visualizing genomic features along a reference sequence. However, the installation and configuration of GBrowse...
A web-based software system for dynamic gene cluster comparison across multiple genomes (2009)
Revanna, Kashi Vishwanath, Krishnakumar, Vivek, Dong, Qunfeng
Summary: Investigating the conservation of gene clusters across multiple genomes has become a standard practice in the era of comparative genomics. However, all existing software and databases rely...
Qunfeng Dong, Suman Banerjee, Jia Wang, Dheeraj Agrawal
Packet classification is the foundation of many Internet functions such as QoS and security. A long thread of research has proposed efficient software-based solutions to this problem. Such software...
System Performance and Modeling, Non Linear Optimization (2008)
Vivek Vishal Shrivastava, Qunfeng Dong, Vivek Shrivastava, Ashutosh Shukla, Dheeraj Agarwal, Suman Banerjee
India. IIT Guwahati is one of the seven prestigious IITs of India and has evolved to be a premier
Qunfeng Dong, Suman Banerjee, Jia Wang, Dheeraj Agrawal
Packet classification is the foundation of many Internet functions such as QoS and security. A long thread of research has proposed efficient software-based solutions to this problem. Such software...
BOV – a web-based BLAST output visualization tool (2008)
Gollapudi, Rajesh, Revanna, Kashi, Hemmerich, Chris, Schaack, Sarah, Dong, Qunfeng
Abstract Background The BLAST program is one of the most widely used sequence similarity search tools for genomic research, even by those biologists lacking extensive bioinformatics training. As the...
Qunfeng Dong, Jia Wang, Suman Banerjee, Dheeraj Agrawal
Many Internet functions require classification of each packet based on a number of packet header fields and a set of rules. Packet classification as a general theory problem is inherently hard [5]....
ABSTRACT Practical Network Coding in Wireless Networks (2008)
Network coding is seen as a promising technique to improve network throughput. In this paper, we study two important problems in localized network coding in wireless networks, which only requires...
Qunfeng Dong, Visa Status F, In Usa
⋄ Mobile and Wireless Networking ⋄ Packet processing in routers/firewalls ⋄ Network security ⋄ Network measurement ⋄ Network management
Tracembler– software for in-silicochromosome walking in unassembled genomes (2007)
Dong, Qunfeng, Wilkerson, Matthew D, Brendel, Volker
Abstract Background Whole genome shotgun sequencing produces increasingly higher coverage of a genome with random sequence reads. Progressive whole genome assembly and eventual finishing sequencing...
Schlueter, Shannon D, Wilkerson, Matthew D, Dong, Qunfeng, Brendel, Volker
Abstract The eXtensible Genome Data Broker (xGDB) provides a software infrastructure consisting of integrated tools for the storage, display, and analysis of genome features in their genomic context....
Load balancing in large-scale rfid systems (2006)
Qunfeng Dong, Ashutosh Shukla, Vivek Shrivastava, Dheeraj Agrawal, Suman Banerjee, Koushik Kar
A radio frequency identifier (RFID) system consists of inexpensive, uniquely-identifiable tags that are mounted on physical objects, and readers that track these tags (and hence these physical...
Throughput optimization and fair bandwidth allocation in multi-hop wireless LANs (2006)
Abstract — There is an inherent well-known conflict between fairness and throughput that arises in many networking scenarios. A number of researchers have studied this problem in the context of...
Throughput optimization and fair bandwidth allocation in multi-hop wireless LANs (2006)
Abstract — There is an inherent well-known conflict between fairness and throughput that arises in many networking scenarios. A number of researchers have studied this problem in the context of...
Packet classifiers in ternary CAMs can be smaller (2006)
Serving as the core component in many packet forwarding, differentiating and filtering schemes, packet classification continues to grow its importance in today’s IP networks. Currently, most...
Throughput optimization and fair bandwidth allocation in multi-hop wireless LANs (2006)
Abstract — There is an inherent well-known conflict between fairness and throughput that arises in many networking scenarios. A number of researchers have studied this problem in the context of...
Minimum energy reliable paths using unreliable wireless links (2005)
Qunfeng Dong, Micah Adler, Suman Banerjee, Archan Misra
We address the problem of energy-efficient reliable wireless communication in the presence of unreliable or lossy wireless link layers in multi-hop wireless networks. Prior work [1] has provided an...
Minimum energy reliable paths using unreliable wireless links (2005)
Qunfeng Dong, Micah Adler, Suman Banerjee, Archan Misra
We address the problem of energy-efficient reliable wireless communication in the presence of unreliable or lossy wireless link layers in multi-hop wireless networks. Prior work [1] has provided an...
Efficient probabilistic packet marking (2005)
Qunfeng Dong, Micah Adler, Suman Banerjee, Kazu Hirata
Abstract — Probabilistic packet marking is a general technique which routers can use to reveal internal network information to end-hosts. Such information is probabilistically set by the routers in...
Efficient probabilistic packet marking (2005)
Abstract — Probabilistic packet marking is a general technique which routers can use to reveal internal network information to end-hosts. Such information is probabilistically set by the routers in...
Genome-wide mutagenesis of Zea maysL. using RescueMutransposons (2004)
Fernandes, John, Dong, Qunfeng, Schneider, Bret, Morrow, Darren J, Nan, Guo-Ling, Brendel, Volker, ...
Abstract Derived from the maize Mu1 transposon, RescueMu provides strategies for maize gene discovery and mutant phenotypic analysis. 9.92 Mb of gene-enriched sequences next to RescueMu insertion...
PlantGDB, plant genome database and analysis tools (2004)
Qunfeng Dong, Shannon D. Schlueter, Volker Brendel
PlantGDB
PlantGDB, plant genome database and analysis tools (2004)
Dong, Qunfeng, Schlueter, Shannon D., Brendel, Volker
PlantGDB (http://www.plantgdb.org/) is a database of molecular sequence data for all plant species with significant sequencing efforts. The database organizes EST sequences into contigs that...
MaizeGDB, the community database for maize genetics and genomics (2004)
Lawrence, Carolyn J., Dong, Qunfeng, Polacco, Mary L., Seigfried, Trent E., Brendel, Volker
The Maize Genetics and Genomics Database (MaizeGDB) is a central repository for maize sequence, stock, phenotype, genotypic and karyotypic variation, and chromosomal mapping data. In addition,...
ZmDB, an integrated database for maize genome research (2003)
Qunfeng Dong, Laura Roy, Michael Freeling, Virginia Walbot, Volker Brendel
Zea mays DataBase (ZmDB) seeks to provide a comprehensive view of maize (corn) genetics by linking genomic sequence data with gene expression analysis and phenotypes of mutant plants. ZmDB originated...
GeneSeqer@PlantGDB: gene structure prediction in plant genomes (2003)
Schlueter, Shannon D., Dong, Qunfeng, Brendel, Volker
The GeneSeqer@PlantGDB Web server (http://www.plantgdb.org/cgi-bin/GeneSeqer.cgi) provides a gene structure prediction tool tailored for applications to plant genomic sequences. Predictions...
ZmDB, an integrated database for maize genome research (2003)
Dong, Qunfeng, Roy, Laura, Freeling, Michael, Walbot, Virginia, Brendel, Volker
Zea mays DataBase (ZmDB) seeks to provide a comprehensive view of maize (corn) genetics by linking genomic sequence data with gene expression analysis and phenotypes of mutant plants. ZmDB originated...
Typescript (photocopy)
ZmDB, an integrated database for maize genome research
Dong, Qunfeng, Roy, Laura, Freeling, Michael, Walbot, Virginia, Brendel, Volker
Zea mays DataBase (ZmDB) seeks to provide a comprehensive view of maize (corn) genetics by linking genomic sequence data with gene expression analysis and phenotypes of mutant plants. ZmDB originated...
GeneSeqer@PlantGDB: gene structure prediction in plant genomes
Schlueter, Shannon D., Dong, Qunfeng, Brendel, Volker
The GeneSeqer@PlantGDB Web server (http://www.plantgdb.org/cgi-bin/GeneSeqer.cgi) provides a gene structure prediction tool tailored for applications to plant genomic sequences. Predictions are based...
MaizeGDB, the community database for maize genetics and genomics
Lawrence, Carolyn J., Dong, Qunfeng, Polacco, Mary L., Seigfried, Trent E., Brendel, Volker
The Maize Genetics and Genomics Database (MaizeGDB) is a central repository for maize sequence, stock, phenotype, genotypic and karyotypic variation, and chromosomal mapping data. In addition,...
PlantGDB, plant genome database and analysis tools
Dong, Qunfeng, Schlueter, Shannon D., Brendel, Volker
PlantGDB (http://www.plantgdb.org/) is a database of molecular sequence data for all plant species with significant sequencing efforts. The database organizes EST sequences into contigs that...
Genome-wide mutagenesis of Zea mays L. using RescueMu transposons
Fernandes, John, Dong, Qunfeng, Schneider, Bret, Morrow, Darren J, Nan, Guo-Ling, Brendel, Volker, ...
The authors describe a large-scale transposon-tagging study in maize using the RescueMu system. The study provides a large resource of tagged and sequenced maize alleles, as well as some insights...
Comparative Plant Genomics Resources at PlantGDB1
Dong, Qunfeng, Lawrence, Carolyn J., Schlueter, Shannon D., Wilkerson, Matthew D., Kurtz, Stefan, Lushbough, Carol, ...
PlantGDB (http://www.plantgdb.org/) is a database of plant molecular sequences. Expressed sequence tag (EST) sequences are assembled into contigs that represent tentative unique genes. EST contigs...
ZmDB, an integrated database for maize genome research
Dong, Qunfeng, Roy, Laura, Freeling, Michael, Walbot, Virginia, Brendel, Volker
Zea mays DataBase (ZmDB) seeks to provide a comprehensive view of maize (corn) genetics by linking genomic sequence data with gene expression analysis and phenotypes of mutant plants. ZmDB originated...
GeneSeqer@PlantGDB: gene structure prediction in plant genomes
Schlueter, Shannon D., Dong, Qunfeng, Brendel, Volker
The GeneSeqer@PlantGDB Web server (http://www.plantgdb.org/cgi-bin/GeneSeqer.cgi) provides a gene structure prediction tool tailored for applications to plant genomic sequences. Predictions are based...
MaizeGDB, the community database for maize genetics and genomics
Lawrence, Carolyn J., Dong, Qunfeng, Polacco, Mary L., Seigfried, Trent E., Brendel, Volker
The Maize Genetics and Genomics Database (MaizeGDB) is a central repository for maize sequence, stock, phenotype, genotypic and karyotypic variation, and chromosomal mapping data. In addition,...
PlantGDB, plant genome database and analysis tools
Dong, Qunfeng, Schlueter, Shannon D., Brendel, Volker
PlantGDB (http://www.plantgdb.org/) is a database of molecular sequence data for all plant species with significant sequencing efforts. The database organizes EST sequences into contigs that...
Genome-wide mutagenesis of Zea mays L. using RescueMu transposons
Fernandes, John, Dong, Qunfeng, Schneider, Bret, Morrow, Darren J, Nan, Guo-Ling, Brendel, Volker, ...
The authors describe a large-scale transposon-tagging study in maize using the RescueMu system. The study provides a large resource of tagged and sequenced maize alleles, as well as some insights...
Comparative Plant Genomics Resources at PlantGDB1
Dong, Qunfeng, Lawrence, Carolyn J., Schlueter, Shannon D., Wilkerson, Matthew D., Kurtz, Stefan, Lushbough, Carol, ...
PlantGDB (http://www.plantgdb.org/) is a database of plant molecular sequences. Expressed sequence tag (EST) sequences are assembled into contigs that represent tentative unique genes. EST contigs...
Schlueter, Shannon D, Wilkerson, Matthew D, Dong, Qunfeng, Brendel, Volker
XGDB, a software infrastructure consisting of integrated tools for the storage, display and analysis of genome features (any property that can be associated with a genomic location, for example...
BOV – a web-based BLAST output visualization tool
Gollapudi, Rajesh, Revanna, Kashi Vishwanath, Hemmerich, Chris, Schaack, Sarah, Dong, Qunfeng
RICHEST ‐ a web server for richness estimation in biological data
Richness is defined as the number of distinct species or classes in a sample or population. Although richness estimation is an important practice, it requires mathematical and computational methods...