Search Results - "Karamycheva, S"

The TIGR Gene Indices: clustering and assembling EST and known genes and integration with eukaryotic genomes by Lee, Y., Tsai, J., Sunkara, S., Karamycheva, S., Pertea, G., Sultana, R., Antonescu, V., Chan, A., Cheung, F., Quackenbush, J.

“…Although the list of completed genome sequencing projects has expanded rapidly, sequencing and analysis of expressed sequence tags (ESTs) remain a primary tool…”
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Enrichment of Gene-Coding Sequences in Maize by Genome Filtration by Whitelaw, C. A., Barbazuk, W. B., Pertea, G., Chan, A. P., Cheung, F., Lee, Y., Zheng, L., van Heeringen, S., Karamycheva, S., Bennetzen, J. L., SanMiguel, P., Lakey, N., Bedell, J., Yuan, Y., Budiman, M. A., Resnick, A., Van Aken, S., Utterback, T., Riedmuller, S., Williams, M., Feldblyum, T., Schubert, K., Beachy, R., Fraser, C. M., Quackenbush, J.

“…Approximately 80% of the maize genome comprises highly repetitive sequences interspersed with single-copy, gene-rich sequences, and standard genome sequencing…”
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Sequence analysis of a rainbow trout cDNA library and creation of a gene index by Rexroad, 3rd, C E, Lee, Y, Keele, J W, Karamycheva, S, Brown, G, Koop, B, Gahr, S A, Palti, Y, Quackenbush, J

“…Expressed sequence tag (EST) projects have produced extremely valuable resources for identifying genes affecting phenotypes of interest. A large-scale EST…”
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An optimized protocol for analysis of EST sequences by Liang, F, Holt, I, Pertea, G, Karamycheva, S, Salzberg, S L, Quackenbush, J

“…The vast body of Expressed Sequence Tag (EST) data in the public databases provide an important resource for comparative and functional genomics studies and an…”
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TIGR gene indices clustering tools (TGICL): a software system for fast clustering of large est datasets by PERTEA, Geo, XIAOQIU HUANG, TSAI, Jennifer, QUACKENBUSH, John, FENG LIANG, ANTONESCU, Valentin, SULTANA, Razvan, KARAMYCHEVA, Svetlana, LEE, Yuandan, WHITE, Joseph, FOO CHEUNG, PARVIZI, Babak

“…TGICL is a pipeline for analysis of large Expressed Sequence Tags (EST) and mRNA databases in which the sequences are first clustered based on pairwise…”
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The TIGR Gene Indices: analysis of gene transcript sequences in highly sampled eukaryotic species by Quackenbush, John, Cho, Jennifer, Lee, Daniel, Liang, Feng, Holt, Ingeborg, Karamycheva, Svetlana, Parvizi, Babak, Pertea, Geo, Sultana, Razvan, White, Joseph

“…While genome sequencing projects are advancing rapidly, EST sequencing and analysis remains a primary research tool for the identification and categorization…”
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Gene Index analysis of the human genome estimates approximately 120,000 genes by Quackenbush, John, Liang, Feng, Holt, Ingeborg, Pertea, Geo, Karamycheva, Svetlana, Salzberg, Steven L

“…Although sequencing of the human genome will soon be completed, gene identification and annotation remains a challenge. Early estimates suggested that there…”
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Cross-referencing eukaryotic genomes: TIGR Orthologous Gene Alignments (TOGA) by Lee, Yuandan, Sultana, Razvan, Pertea, Geo, Cho, Jennifer, Karamycheva, Svetlana, Tsai, Jennifer, Parvizi, Babak, Cheung, Foo, Antonescu, Valentin, White, Joseph, Holt, Ingeborg, Liang, Feng, Quackenbush, John

“…Comparative genomics promises to rapidly accelerate the identification and functional classification of biologically important human genes. We developed the…”
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MeSHer: identifying biological concepts in microarray assays based on PubMed references and MeSH terms by Djebbari, Amira, Karamycheva, Svetlana, Howe, Eleanor, Quackenbush, John

“…MeSHer uses a simple statistical approach to identify biological concepts in the form of Medical Subject Headings (MeSH terms) obtained from the PubMed…”
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RESOURCERER: a database for annotating and linking microarray resources within and across species by Tsai, J, Sultana, R, Lee, Y, Pertea, G, Karamycheva, S, Antonescu, V, Cho, J, Parvizi, B, Cheung, F, Quackenbush, J

“…Microarray expression analysis is providing unprecedented data on gene expression in humans and mammalian model systems. Although such studies provide a…”
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Gene discovery in Plasmodium vivax through sequencing of ESTs from mixed blood stages by Cui, Liwang, Fan, Qi, Hu, Yi, Karamycheva, Svetlana A., Quackenbush, John, Khuntirat, Benjawan, Sattabongkot, Jetsumon, Carlton, Jane M.

“…Despite the significance of Plasmodium vivax as the most widespread human malaria parasite and a major public health problem, gene expression in this parasite…”
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