Results 31 to 40 of about 566,833 (345)

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).
Jeremy Archuleta, Wu-chun Feng, João C. Setubal, João C. Setubal, Andrew S. Warren, Andrew S. Warren   +5 more
openaire   +4 more sources

Improved annotation of 3' untranslated regions and complex loci by combination of strand-specific direct RNA sequencing, RNA-seq and ESTs [PDF]

, 2013
The reference annotations made for a genome sequence provide the framework for all subsequent analyses of the genome. Correct annotation is particularly important when interpreting the results of RNA-seq experiments where short sequence reads are mapped ...
A Derti, A Dobin, A Sherstnev, AI Reid, Alexander Sherstnev, B Langmead, BJ Haas, BJ Haas, BS Yoon, C Burge, C Cole, C Luo, C Trapnell, CE Joyce, CH Jan, Christian Cole, Céline Duc, D Brawand, DM Church, F Ozsolak, F Ozsolak, F Ozsolak, Geoffrey J. Barton, Gordon G. Simpson, H Stroud, H Zou, HK Saini, I Ulitsky, J Bracht, J Harrow, JE Collins, JH Yang, Junfang Song, Kate G. Storey, L Jiang, M Fujii, M Garber, M Yandell, MB Gerstein, Nicholas J. Schurch, P Lamesch, PE Boardman, Sara J. Brown, T Pelissier, Thomas Preiss, TS Becker, V Curwen, V Hamburger, W. H. Irwin McLean, X Cai, Y Kurihara, Y Lee, Z Moqtaderi   +52 more
core   +9 more sources

A curated catalog of canine and equine keratin genes. [PDF]

PLoS ONE, 2017
Keratins represent a large protein family with essential structural and functional roles in epithelial cells of skin, hair follicles, and other organs. During evolution the genes encoding keratins have undergone multiple rounds of duplication and humans ...
Pierre Balmer, Anina Bauer, Shashikant Pujar, Kelly M McGarvey, Monika Welle, Arnaud Galichet, Eliane J Müller, Kim D Pruitt, Tosso Leeb, Vidhya Jagannathan   +9 more
doaj   +1 more source

Human gene correlation analysis (HGCA): A tool for the identification of transcriptionally co-expressed genes

BMC Research Notes, 2012
Background Bioinformatics and high-throughput technologies such as microarray studies allow the measure of the expression levels of large numbers of genes simultaneously, thus helping us to understand the molecular mechanisms of various biological ...
Michalopoulos Ioannis, Pavlopoulos Georgios A, Malatras Apostolos, Karelas Alexandros, Kostadima Myrto-Areti, Schneider Reinhard, Kossida Sophia   +6 more
doaj   +1 more source

Gene coexpression network analysis as a source of functional annotation for rice genes. [PDF]

PLoS ONE, 2011
With the existence of large publicly available plant gene expression data sets, many groups have undertaken data analyses to construct gene coexpression networks and functionally annotate genes.
Kevin L Childs, Rebecca M Davidson, C Robin Buell   +2 more
doaj   +1 more source

FusionGDB: fusion gene annotation DataBase. [PDF]

Nucleic Acids Res, 2019
Gene fusion is one of the hallmarks of cancer genome via chromosomal rearrangement initiated by DNA double-strand breakage. To date, many fusion genes (FGs) have been established as important biomarkers and therapeutic targets in multiple cancer types.
Kim P, Zhou X.
europepmc   +5 more sources

Annotation Enrichment Analysis: An Alternative Method for Evaluating the Functional Properties of Gene Sets [PDF]

, 2013
Gene annotation databases (compendiums maintained by the scientific community that describe the biological functions performed by individual genes) are commonly used to evaluate the functional properties of experimentally derived gene sets.
Girvan, Michelle, Glass, Kimberly
core   +2 more sources

The use of semantic similarity measures for optimally integrating heterogeneous Gene Ontology data from large scale annotation pipelines

Frontiers in Genetics, 2014
With the advancement of new high throughput sequencing technologies, there has been an increase in the number of genome sequencing projects worldwide, which has yielded complete genome sequences of human, animals and plants.
Gaston K Mazandu, Nicola eMulder
doaj   +1 more source

GenomeGraphs: integrated genomic data visualization with R. [PDF]

, 2009
BackgroundBiological studies involve a growing number of distinct high-throughput experiments to characterize samples of interest. There is a lack of methods to visualize these different genomic datasets in a versatile manner.
Bullard, James, Dudoit, Sandrine, Durinck, Steffen, Spellman, Paul T   +3 more
core   +3 more sources

Liftoff: accurate mapping of gene annotations [PDF]

Bioinformatics, 2021
Abstract Motivation Improvements in DNA sequencing technology and computational methods have led to a substantial increase in the creation of high-quality genome assemblies of many species. To understand the biology of these genomes, annotation of gene features and other functional elements is ...
Alaina Shumate, Steven L Salzberg
openaire   +3 more sources