Searching journal content for articles similar to Merrihew et al. 18 (10): 1660.

Displaying results 1-10 of 44

For checked items

view abstracts
download to citation manager

Select this article
Resource: CGC1, a new reference genome for Caenorhabditis elegans
- Kazuki Ichikawa,
- Massa J. Shoura,
- Karen L. Artiles,
- Dae-Eun Jeong,
- Chie Owa,
- Haruka Kobayashi,
- Yoshihiko Suzuki,
- Manami Kanamori,
- Yu Toyoshima,
- Yuichi Iino,
- Ann E. Rougvie,
- Lamia Wahba,
- Andrew Z. Fire,
- Erich M. Schwarz,
- and Shinichi Morishita
Genome Res. August 2025 35: 1902-1918; Published in Advance July 15, 2025, doi:10.1101/gr.280274.124
..., a Moerman Gene Knockout Laboratory subculture of N2 obtained from the Caenorhabditis Genetics Center (https://cgc.umn.edu) in 2002 and first described by Flibotte et al. (2010).C. elegans and gene annotation versionsIn analyzing gDNA from the N2 assembly, we have used the most recent stable version from...
OPEN ACCESS ARTICLE
Select this article
Research: Profiling the RNA editomes of wild-type C. elegans and ADAR mutants
- Han-Qing Zhao,
- Pan Zhang,
- Hua Gao,
- Xiandong He,
- Yanmei Dou,
- August Y. Huang,
- Xi-Ming Liu,
- Adam Y. Ye,
- Meng-Qiu Dong,
- and Liping Wei
Genome Res. January 2015 25: 66-75; Published in Advance November 4, 2014, doi:10.1101/gr.176107.114
...).Weuseda strand-specific strategy during RNA-seq library construction, and the accuracy of the strand separationwas confirmed to be higher than 99.8% (Methods). Hence, we could determine the transcript orientation with high confidence in the absence of gene annotations. RNA editing was found in both...
OPEN ACCESS ARTICLE
Select this article
Letter: Deterministic protein inference for shotgun proteomics data provides new insights into Arabidopsis pollen development and function
- Monica A. Grobei,
- Ermir Qeli,
- Erich Brunner,
- Hubert Rehrauer,
- Runxuan Zhang,
- Bernd Roschitzki,
- Konrad Basler,
- Christian H. Ahrens,
- and Ueli Grossniklaus
Genome Res. October 2009 19: 1786-1800; Published in Advance June 22, 2009, doi:10.1101/gr.089060.108
...relationships. It allowed us to classify and eliminate ambiguities inherently associated with any shotgun proteomics data set, to report a conservative list of protein identifications, and to seamlessly integrate data from previous transcriptomics studies. Manual validation of proteins unambiguously identified...
Select this article
Resource: Massively parallel sequencing of the polyadenylated transcriptome of C. elegans
- LaDeana W. Hillier,
- Valerie Reinke,
- Philip Green,
- Martin Hirst,
- Marco A. Marra,
- and Robert H. Waterston
Genome Res. April 2009 19: 657-666; Published in Advance January 30, 2009, doi:10.1101/gr.088112.108
...Base (WS170) and confirm additional details of processing. For example, the total number of confirmed splice junctions was raised from 70,911 to over 98,000. The data also suggest thousands of modifications to WormBase annotations and identify new spliced junctions and genes not part of any Worm...
Select this article
LETTER: Assessing the Drosophila melanogaster and Anopheles gambiae Genome Annotations Using Genome-Wide Sequence Comparisons
- Olivier Jaillon,
- Carole Dossat,
- Ralph Eckenberg,
- Karin Eiglmeier,
- Béatrice Segurens,
- Jean-Marc Aury,
- Charles W. Roth,
- Claude Scarpelli,
- Paul T. Brey,
- Jean Weissenbach,
- and Patrick Wincker
Genome Res. July 2003 13: 1595-1599; doi:10.1101/gr.922503
...( Fig.1B ). A second example is seen in Figure 2 , where the presence of two ecores in a region without annotation in the two insect s revealed the existence of a totally new gene, confirmed by a spliced mosquito cDNA. View larger version: In this window In a new window Figure 1 Exofish analysis...
Select this article
Methods: High-Throughput Expression of C. elegans Proteins
- Chi-Hao Luan,
- Shihong Qiu,
- James B. Finley,
- Mike Carson,
- Rita J. Gray,
- Wenying Huang,
- David Johnson,
- Jun Tsao,
- Jérôme Reboul,
- Philippe Vaglio,
- David E. Hill,
- Marc Vidal,
- Lawrence J. DeLucas,
- and Ming Luo
Genome Res. October 15, 2004 14: 2102-2110; doi:10.1101/gr.2520504
...of Protein Expression of C. elegans Table 1 summarizes the results of protein expression for 118 plates of C. elegans ORFs. To achieve proteome-scale analysis, expression and solubility data were obtained using the same conditions for all genes. From the 10,167 unique ORFs, small-scale expression in E. coli...
Select this article
Methods: Identification of Rat Genes by TWINSCAN Gene Prediction, RT–PCR, and Direct Sequencing
- Jia Qian Wu,
- David Shteynberg,
- Manimozhiyan Arumugam,
- Richard A. Gibbs,
- and Michael R. Brent
Genome Res. April 2004 14: 665-671; doi:10.1101/gr.1959604
...In these experiments we used TWINSCAN gene prediction followed by RT–PCR and direct sequencing to confirm partial gene structures in the newly sequenced rat . All 444 of the targets had significant similarity to known human genes, but they were at least partially missed by the April 2003 Ensembl annotation of the rat...
Select this article
LETTER: Comparing low coverage random shotgun sequence data from Brassica oleracea and Oryza sativa genome sequence for their ability to add to the annotation of Arabidopsis thaliana
- Manpreet S. Katari,
- Vivekanand Balija,
- Richard K. Wilson,
- Robert A. Martienssen,
- and W. Richard McCombie
Genome Res. April 2005 15: 496-504; doi:10.1101/gr.3239105
...species complements the current annotation strategies by identifying genes and improving gene structure. A total of 595,321 Brassica oleracea shotgun reads were sequenced by TIGR (The Institute for Genome Research) and the collaboration of Washington University and Cold Spring Harbor. Vicogenta (a...
Select this article
RESOURCE: Closing in on the C. elegans ORFeome by cloning TWINSCAN predictions
- Chaochun Wei,
- Philippe Lamesch,
- Manimozhiyan Arumugam,
- Jennifer Rosenberg,
- Ping Hu,
- Marc Vidal,
- and Michael R. Brent
Genome Res. April 2005 15: 577-582; doi:10.1101/gr.3329005
...). When this procedure was tested on a set of elegans genes for which the WormBase annotation was known to be correct, the correct model was chosen 92% of the time. This number only bears on the sets of overlapping gene models that include at least one correct model. It provides no information about...
Select this article
PERSPECTIVE: Genomics in C. elegans: So many genes, such a little worm
- LaDeana W. Hillier,
- Alan Coulson,
- John I. Murray,
- Zhirong Bao,
- John E. Sulston,
- and Robert H. Waterston
Genome Res. December 2005 15: 1651-1660; doi:10.1101/gr.3729105
...with the structural analysis of the RNA genes that regulate them. Proteomics With the well-annotated C. elegans in hand, both the study of individual proteins and the study of interactions among those proteins can proceed. In a high-throughput proteomic effort to confirm protein-coding genes, G. Merrihew, J.H. Thomas...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Merrihew et al. 18 (10): 1660.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: