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Cited By41
Published on Feb 9, 2006in BMC Bioinformatics 2.21
Mario Stanke36
Estimated H-index: 36
(University of Göttingen),
Oliver Schöffmann1
Estimated H-index: 1
(University of Göttingen)
+ 1 AuthorsStephan Waack16
Estimated H-index: 16
(University of Göttingen)
Background In order to improve gene prediction, extrinsic evidence on the gene structure can be collected from various sources of information such as genome-genome comparisons and EST and protein alignments. However, such evidence is often incomplete and usually uncertain. The extrinsic evidence is usually not sufficient to recover the complete gene structure of all genes completely and the available evidence is often unreliable. Therefore extrinsic evidence is most valuable when it is balanced ...
348 Citations Source Cite
Published on Jul 1, 1997in Molecular and Cellular Biochemistry 2.56
Choong-Chin Liew2
Estimated H-index: 2
(University of Toronto),
David M. Hwang32
Estimated H-index: 32
(University of Toronto)
+ 14 AuthorsYing Liu11
Estimated H-index: 11
(University of Toronto)
The availability of high quality cDNA libraries is often crucial to the successful identification and characterization of genes. The concepts and potential pitfalls of constructing cDNA libraries are presented. Various applications requiring high quality cDNA libraries are outlined, including large-scale single pass sequencing of cDNA clones to generate expressed sequence tags (ESTs) and differential screening of cDNA libraries. The usefulness of combining such approaches for the discovery of no...
13 Citations Source Cite
Published on Apr 27, 2000in Genome Biology 13.21
Fatima Cvrčková19
Estimated H-index: 19
(Charles University in Prague)
Background The formin family of proteins has been implicated in signaling pathways of cellular morphogenesis in both animals and fungi; in the latter case, at least, they participate in communication between the actin cytoskeleton and the cell surface. Nevertheless, they appear to be cytoplasmic or nuclear proteins, and it is not clear whether they communicate with the plasma membrane, and if so, how. Because nothing is known about formin function in plants, I performed a systematic search for p...
53 Citations Source Cite
Published on Aug 1, 2001in Genome Biology 13.21
Natalia Volfovsky15
Estimated H-index: 15
,
Brian J. Haas64
Estimated H-index: 64
,
Steven L. Salzberg118
Estimated H-index: 118
Background A computational system for analysis of the repetitive structure of genomic sequences is described. The method uses suffix trees to organize and search the input sequences; this data structure has been used previously for efficient computation of exact and degenerate repeats.
118 Citations Source Cite
Published on Oct 21, 2005in BMC Bioinformatics 2.21
Alexander G. Churbanov5
Estimated H-index: 5
(University of Nebraska Omaha),
Mark A. Pauley6
Estimated H-index: 6
(University of Nebraska Omaha)
+ 1 AuthorsHesham H. Ali16
Estimated H-index: 16
(University of Nebraska Omaha)
Background Accurate and automatic gene finding and structural prediction is a common problem in bioinformatics, and applications need to be capable of handling non-canonical splice sites, micro-exons and partial gene structure predictions that span across several genomic clones.
7 Citations Source Cite
Published on Dec 1, 2004in BMC Cancer 3.29
Valdemar Máximo30
Estimated H-index: 30
(Institute of Molecular Pathology and Immunology of the University of Porto),
Ana Preto22
Estimated H-index: 22
(Institute of Molecular Pathology and Immunology of the University of Porto)
+ 4 AuthorsManuel Sobrinho-Simões60
Estimated H-index: 60
(Institute of Molecular Pathology and Immunology of the University of Porto)
Background Most of the steps involved in the initiation and progression of Hurthle (oncocytic, oxyphilic) cell carcinomas of the thyroid remain unknown.
7 Citations Source Cite
Published on Feb 21, 2007in BMC Genomics 3.73
Emilie Bonnet5
Estimated H-index: 5
(Institut national de la recherche agronomique),
Alexis Fostier42
Estimated H-index: 42
(Institut national de la recherche agronomique),
Julien Bobe26
Estimated H-index: 26
(Institut national de la recherche agronomique)
Background The preservation of fish egg quality after ovulation-control protocols is a major issue for the development of specific biotechnological processes (e.g. nuclear transfer). Depending on the species, it is often necessary to control the timing of ovulation or induce the ovulatory process. The hormonal or photoperiodic control of ovulation can induce specific egg quality defects that have been thoroughly studied. In contrast, the impact on the egg transcriptome as a result of these manip...
76 Citations Source Cite
Published on Aug 5, 2002in BMC Genomics 3.73
Martin Gajewski13
Estimated H-index: 13
(University of Cologne),
Chris Voolstra3
Estimated H-index: 3
(University of Cologne)
Background Members of a class of bHLH transcription factors, namely the hairy (h), Enhancer of split (E(spl)) and hairy-related with YRPW motif (hey) (h/E(spl)/hey) genes are involved in vertebrate somitogenesis and some of them show cycling expression. By sequence comparison, identified orthologues of cycling somitogenesis genes from higher vertebrates do not show an appropriate expression pattern in zebrafish. The zebrafish genomic sequence is not available yet but the genome of Fugu rubripes ...
28 Citations Source Cite
Published on Jan 1, 2010in BMC Biotechnology 2.60
Nalini Eswaran1
Estimated H-index: 1
,
Sriram Parameswaran1
Estimated H-index: 1
(DuPont)
+ 3 AuthorsSudhakar Johnson Tangirala1
Estimated H-index: 1
Background Environmentally inflicted stresses such as salinity and drought limit the plant productivity both in natural and agricultural system. Increasing emphasis has been directed to molecular breeding strategies to enhance the intrinsic ability of plant to survive stress conditions. Functional screens in microorganisms with heterologous genes are a rapid, effective and powerful tool to identify stress tolerant genes in plants. Jatropha curcas (Physic nut) has been identified as a potential s...
42 Citations Source Cite
Published on Jan 1, 2004in Breast Cancer Research and Treatment 3.60
Mark H. Kaplan30
Estimated H-index: 30
(North Shore University Hospital),
Xue Ping Wang1
Estimated H-index: 1
(North Shore University Hospital)
+ 1 AuthorsMichael H. Dosik4
Estimated H-index: 4
Using modified representational difference analysis, a DNA fragment (GC3) was isolated as a difference between a breast cancer and a normal cell line from the same patient. GC3 proved to be a fragment of intron 7 of the ELF3 gene, an ets family transcription factor, amplified in the breast cancer cell line. Using genomic walking technology, a new Alu (Alukwd) was found downstream of GC3 in an antisense position between nt 8762 and nt 8763 within intron 8 of the ELF3 gene. This ELF3 intron fragme...
10 Citations Source Cite
View next paperIdentification of protein coding regions by database similarity search