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LETTER: Parking Strategies for Genome Sequencing
- Jared C. Roach,
- Vesteinn Thorsson,
- and Andrew F. Siegel
Genome Res. July 1, 2000 10: 1020-1030; doi:10.1101/gr.10.7.1020
...savings during gap closing. Therefore, this trade-off presents an additional opportunity for optimization, in conjunction with a model for the cost of gap closing. Sequence walking is a common strategy for gap closing. The sequence-tagged-connector approach is a suitable walking strategy for large s...
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RESOURCE: A Bacterial Artificial Chromosome Library for Sequencing the Complete Human Genome
- Kazutoyo Osoegawa,
- Aaron G. Mammoser,
- Chenyan Wu,
- Eirik Frengen,
- Changjiang Zeng,
- Joseph J. Catanese,
- and Pieter J. de Jong
Genome Res. March 1, 2001 11: 483-496; doi:10.1101/gr.169601
...screening to search for BACs overlapping with large sequence contigs and to use these BACs as sources to expand the contiguous sequence. Because of the option to use insert-end sequences to connect existing sequence data with clones, the term STC for sequence tag connectors was introduced ( Venter et al...
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RESOURCE: A Deep-Coverage Tomato BAC Library and Prospects Toward Development of an STC Framework for Genome Sequencing
- Muhammad A. Budiman,
- Long Mao,
- Todd C. Wood,
- and Rod A. Wing
Genome Res. January 1, 2000 10: 129-136; doi:10.1101/gr.10.1.129
..., Clemson, South Carolina 29634 USA; 2Department of Soil and Crop Sciences, Texas A&amp;M University, College Station, Texas 77843 USA Abstract Recently a new strategy using BAC end sequences as sequence-tagged connectors (STCs) was proposed for whole-genome sequencing projects. In this study, we...
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RESEARCH: Sequencing a Genome by Walking with Clone-End Sequences: A Mathematical Analysis
- Serafim Batzoglou,
- Bonnie Berger,
- Jill Mesirov,
- and Eric S. Lander
Genome Res. December 1, 1999 9: 1163-1174; doi:10.1101/gr.9.12.1163
...for selecting minimally overlapping clones, which is commonly referred to as “BAC-end sequencing” or, more formally, as “sequence-tagged connectors” (STCs). A BAC library is characterized by sequencing the inserts of each clone at its two ends (using primers located in the two vector arms), and a database...
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Methods: Pooled genomic indexing of rhesus macaque
- Aleksandar Milosavljevic,
- Ronald A. Harris,
- Erica J. Sodergren,
- Andrew R. Jackson,
- Ken J. Kalafus,
- Anne Hodgson,
- Andrew Cree,
- Weilie Dai,
- Miklos Csuros,
- Baoli Zhu,
- Pieter J. de Jong,
- George M. Weinstock,
- and Richard A. Gibbs
Genome Res. February 2005 15: 292-301; doi:10.1101/gr.3162505
...economically provides limited but useful information for a number of applications. The sequence-tagged connector (STC) method for assembly ( Mahairas et al. 1999 ; Siegel et al. 1999 , 2000 ) employs sequences from the ends of BAC clone inserts for the scaffolding of sequence contigs. The BAC-end sequence (BES...
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LETTER: Rice Transposable Elements: A Survey of 73,000 Sequence-Tagged-Connectors
- Long Mao,
- Todd C. Wood,
- Yeisoo Yu,
- Muhammad A. Budiman,
- Jeff Tomkins,
- Sung-sick Woo,
- Maciek Sasinowski,
- Gernot Presting,
- David Frisch,
- Steve Goff,
- Ralph A. Dean,
- and Rod A. Wing
Genome Res. July 1, 2000 10: 982-990; doi:10.1101/gr.10.7.982
.... , van den Engh G. ( 1999 ) Analysis of sequence-tagged-connector strategies for DNA sequencing. Genome Res. 9 : 297 – 307 . ↵ Song W.Y. , Pi L.Y. , Bureau T.E. , Ronald P.C. ( 1998 ) Identification and characterization of 14 transposon-like elements in the noncoding regions of members of the Xa21 family...
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RESOURCE: A Marker-Dense Physical Map of the Bradyrhizobium japonicum Genome
- Jeffrey P. Tomkins,
- Todd C. Wood,
- Minviluz G. Stacey,
- John T. Loh,
- Adam Judd,
- Jose L. Goicoechea,
- Gary Stacey,
- Michael J. Sadowsky,
- and Rod A. Wing
Genome Res. August 1, 2001 11: 1434-1440; doi:10.1101/gr.185001
...BAC inserts were sequenced to generate a sequence-tagged connector (STC) framework. To join and orient the contigs, high-density BAC colony filters were probed with 41 known gene probes and 17 end sequences from contig boundaries. STC sequences were searched against the public databases using FASTA...
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RESEARCH: Analysis of the 1.1-Mb Human α/δ T-Cell Receptor Locus with Bacterial Artificial Chromosome Clones
- Cecilie Boysen,
- Melvin I. Simon,
- and Leroy Hood
Genome Res. April 1, 1997 7: 330-338; doi:10.1101/gr.7.4.330
...Be Sequenced by the Sequence-Tagged Connector Approach A major limitation in conventional large-scale DNA sequencing operations lies in the production of sequence-ready maps with minimum clone overlaps. The YAC or BAC inserts may be derived from genomic DNA or chromosome-specific DNA. Current approaches...
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LETTER: A Fine Physical Map of the Rice Chromosome 4
- Qiang Zhao,
- Yu Zhang,
- Zhukuan Cheng,
- Mingsheng Chen,
- Shengyue Wang,
- Qi Feng,
- Yucheng Huang,
- Ying Li,
- Yesheng Tang,
- Bo Zhou,
- Zhehua Chen,
- Shuliang Yu,
- Jingjie Zhu,
- Xin Hu,
- Jie Mu,
- Kai Ying,
- Pei Hao,
- Lei Zhang,
- Yiqi Lu,
- Lei S. Zhang,
- Yilei Liu,
- Zhen Yu,
- Danlin Fan,
- Qijun Weng,
- Ling Chen,
- Tingting Lu,
- Xiaohui Liu,
- Peixin Jia,
- Tongguo Sun,
- Yongrui Wu,
- Yujun Zhang,
- Ying Lu,
- Can Li,
- Rong Wang,
- Haiyan Lei,
- Tao Li,
- Hao Hu,
- Mei Wu,
- Runquan Zhang,
- Jianping Guan,
- Jia Zhu,
- Gang Fu,
- Minghong Gu,
- Guofan Hong,
- Yongbiao Xue,
- Rod Wing,
- Jiming Jiang,
- and Bin Han
Genome Res. May 1, 2002 12: 817-823; doi:10.1101/gr.48902
...Nipponbare ( Sasaki and Burr 2000 ). This strategy requires a comprehensive physical map of the entire japonica Nipponbare . Approaches based on BAC fingerprinting, iterative hybridization, and sequence tag connector (STC, which is to use BAC-end sequences for connecting BAC clones by sequence identity) have...
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Letter: Two duplicated P450 genes are associated with pyrethroid resistance in Anopheles funestus, a major malaria vector
- Charles S. Wondji,
- Helen Irving,
- John Morgan,
- Neil F. Lobo,
- Frank H. Collins,
- Richard H. Hunt,
- Maureen Coetzee,
- Janet Hemingway,
- and Hilary Ranson
Genome Res. March 2009 19: 452-459; Published in Advance February 5, 2009, doi:10.1101/gr.087916.108
..., C. , Loftus, B.J. , Ren, C. , Huff, E.R. , Carlile, J.L. , Black, K. , et al. ( 2003 ) Construction of a BAC library and generation of BAC end sequence-tagged connectors for sequencing of the African malaria mosquito Anopheles gambiae . Mol. Genet. Genomics 268 : 720 – 728 . ↵ Hunt, R.H. , Brooke, B...

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