Results 71 to 80 of about 10,955,304 (331)

Chromosome-level genome assembly of Fragaria pentaphylla using PacBio and Hi-C technologies

Frontiers in Genetics, 2022
Fragaria pentaphylla, a wild diploid quinquefoliolate species of Fragaria, is native to Southwest China. It has two morphs of red and white fruit color in nature and has characteristics of unique fragrance and resistance, which made it not only a ...
Rui Sun, Rui Sun, Rui Sun, Shuangtao Li, Shuangtao Li, Shuangtao Li, Linlin Chang, Linlin Chang, Linlin Chang, Jing Dong, Jing Dong, Jing Dong, Chuanfei Zhong, Chuanfei Zhong, Chuanfei Zhong, Hongli Zhang, Hongli Zhang, Hongli Zhang, Lingzhi Wei, Lingzhi Wei, Lingzhi Wei, Yongshun Gao, Yongshun Gao, Yongshun Gao, Guixia Wang, Guixia Wang, Guixia Wang, Yuntao Zhang, Yuntao Zhang, Yuntao Zhang, Jian Sun, Jian Sun, Jian Sun   +32 more
doaj   +1 more source

ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks

Bioinform., 2009
Summary: We have developed ClueGO, an easy to use Cytoscape plug-in that strongly improves biological interpretation of large lists of genes. ClueGO integrates Gene Ontology (GO) terms as well as KEGG/BioCarta pathways and creates a functionally ...
G. Bindea, Bernhard Mlecnik, H. Hackl, P. Charoentong, M. Tosolini, A. Kirilovsky, W. Fridman, F. Pagès, Z. Trajanoski, J. Galon   +9 more
semanticscholar   +1 more source

GenDB - an open source genome annotation system for prokaryote genomes [PDF]

, 2003
Meyer F, Goesmann A, McHardy AC, et al. GenDB - an open source genome annotation system for prokaryote genomes. Nucleic Acids Research.
Rupp, Oliver, Bartels, Daniela, Linke, Burkhard, McHardy, Alice C., Goesmann, Alexander ; https://orcid.org/, Bekel, Thomas, Kalinowski, Jörn, Giegerich, Robert, Pühler, Alfred ; https://orcid.org/, Meyer, Folker, Clausen, Jörn   +10 more
core   +1 more source

Genomic Prediction of Complex Phenotypes Using Genic Similarity Based Relatedness Matrix

Frontiers in Genetics, 2018
In the last years, a series of methods for genomic prediction (GP) have been established, and the advantages of GP over pedigree best linear unbiased prediction (BLUP) have been reported.
Ning Gao, Jinyan Teng, Shaopan Ye, Xiaolong Yuan, Shuwen Huang, Hao Zhang, Xiquan Zhang, Jiaqi Li, Zhe Zhang   +8 more
doaj   +1 more source

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

Genome Biology, 2007
EVidenceModeler (EVM) is presented as an automated eukaryotic gene structure annotation tool that reports eukaryotic gene structures as a weighted consensus of all available evidence.
B. Haas, S. Salzberg, Wei Zhu, M. Perțea, J. Allen, Joshua Orvis, O. White, C. R. Buell, J. Wortman   +8 more
semanticscholar   +1 more source

Prosecutor: parameter-free inference of gene function for prokaryotes using DNA microarray data, genomic context and multiple gene annotation sources [PDF]

, 2008
Background: Despite a plethora of functional genomic efforts, the function of many genes in sequenced genomes remains unknown. The increasing amount of microarray data for many species allows employing the guilt-by-association principle to predict ...
Hofstede, K.J., Oscar P Kuipers, Hijum, Sacha A.F.T. van,, Breitling, Rainer, Blom, E.J., Breitling, R., Breitling, Rainer,, Blom Evert, Roerdink, J.B.T.M., Hofstede Klaas, Breitling Rainer, Jos BTM Roerdink, Blom, Evert Jan, Klaas Hofstede, Roerdink, J.B.T.M.; id_orcid, Kuipers, Oscar P.,, van Hijum, S.A F T, Kuipers, O.P., Hofstede, Klaas Jan,, Roerdink, Jos B T M, van Hijum Sacha AFT, Roerdink Jos BTM, Kuipers, Oscar P., Rainer Breitling, van Hijum, S.A.F.T., Kuipers Oscar P, Hofstede, Klaas Jan, van Hijum, Sacha A F T, Blom, Evert Jan,, Sacha AFT van Hijum, Roerdink, Jos B.T.M.,, Evert Blom, Kuipers, O.P.; id_orcid   +32 more
core   +2 more sources

Missing genes in the annotation of prokaryotic genomes [PDF]

BMC Bioinformatics, 2010
Protein-coding gene detection in prokaryotic genomes is considered a much simpler problem than in intron-containing eukaryotic genomes. However there have been reports that prokaryotic gene finder programs have problems with small genes (either over-predicting or under-predicting).
Andrew S. Warren, Jeremy S. Archuleta, Wu-chun Feng, João Carlos Setubal   +3 more
openaire   +6 more sources

Annotation compatibility working group report [PDF]

, 2006
This report explores the question of compatibility between annotation projects including translating annotation formalisms to each other or to common forms. Compatibility issues are crucial for systems that use the results of multiple annotation projects.
Fang, Alex Chengyu, Contributors A. Meyers, Kübler, Sandra, Palmer, Martha, H. Zinsmeister, Hinrichs, Erhard, Schuler, Karin Kipper, G. Penn, A. C. Fang, E. Loper, M. Poesio, T. Jia-lin, Pustejovsky, James, E. Hovy, E. Hinrichs, L. Levin, B. A. Onyshkevych, Hajicova, Eva, Dorr, Bonnie, N. Xue, Hovy, Ed, Farwell, David, Ferro, Lisa, M. Palmer, Levin, Lori, Meyers, Adam, B. Dorr, D. Farwell, Jia-Lin, Tsai, Wiebe, Janyce, J. Pustejovsky, Poesio, Massimo, Loper, Edward, Onyshkevych, Boyan A., Zinsmeister, Heike, Xue, Nianwen, E. Hajicova, L. Ferro, J. Wiebe, Penn, Gerald, A. Meyers, Dolbey, Andrew, S. Kübler, K. K. Schuler, A. Dolbey   +44 more
core   +1 more source

Identification, Culture Characteristics and Whole-Genome Analysis of Pestalotiopsis neglecta Causing Black Spot Blight of Pinus sylvestris var. mongolica

Journal of Fungi, 2023
Black spot needle blight is a serious conifer disease of Pinus sylvestris var. mongolica occurring in Northeast China, which is usually caused by the plant pathogenic fungus Pestalotiopsis neglecta. From the diseased pine needles collected in Honghuaerji,
Jing Yang, Shuren Wang, Yundi Zhang, Yunze Chen, Heying Zhou, Guocai Zhang   +5 more
doaj   +1 more source

Improved elucidation of biological processes linked to diabetic nephropathy by single probe-based microarray data analysis [PDF]

, 2008
Background: Diabetic nephropathy (DN) is a complex and chronic metabolic disease that evolves into a progressive fibrosing renal disorder. Effective transcriptomic profiling of slowly evolving disease processes such as DN can be problematic.
Seifert, Martin, Hermann-Josef Gröne, Gröne, H J, Nelson, P. J., Felix Eichinger, Moll, Anton G., Kiss, Eva, Lindenmeyer, M T, Grone, E., Kiss, E, Nelson, P J, Gröne, Elisabeth, Anton G Moll, Schmid, H., Grone, H. J., Matthias Kretzler, Lindenmeyer, Maja T., Cohen, C D, Alexander Hahn, Moll, A G, Gröne, E, Holger Schmid, Hahn, A, Eichinger, F, Werner, T, Eichinger, F., Hahn, Alexander, Clemens D Cohen, Schmid, H, Martin Seifert, Kretzler, M., Werner, Thomas, Hahn, A., Seifert, M., Lindenmeyer, M. T., Kiss, E., Eichinger, Felix, Nelson, Peter J., Seifert, M, Kretzler, Matthias, Maja T Lindenmeyer, Cohen, Clemens D., Kretzler, M, Elisabeth Gröne, Gröne, Hermann-Josef, Peter J Nelson, Schmid, Holger, Eva Kiss, Cohen, C. D., Werner, T., Thomas Werner   +50 more
core   +1 more source