Efficient mapping of Applied Biosystems SOLiD sequence data to a reference genome for functional genomic applications Export

@article{citeulike:3394239, abstract = {Summary: Here, we report the development of SOCS (short oligonucleotide color space), a program designed for efficient and flexible mapping of Applied Biosystems SOLiD sequence data onto a reference genome. SOCS performs its mapping within the context of color space', and it maximizes usable data by allowing a user-specified number of mismatches. Sequence census functions facilitate a variety of functional genomics applications, including transcriptome mapping and profiling, as well as ChIP-Seq. Availability: Executables, source code, and sample data are available at http://socs.biology.gatech.edu/ Contact: nickbergman@gatech.edu Supplementary information: Supplementary data are available at Bioinformatics Online. 10.1093/bioinformatics/btn512}, author = {Ondov, Brian D. and Varadarajan, Anjana and Passalacqua, Karla D. and Bergman, Nicholas H.}, citeulike-article-id = {3394239}, citeulike-linkout-0 = {http://dx.doi.org/10.1093/bioinformatics/btn512}, citeulike-linkout-1 = {http://bioinformatics.oxfordjournals.org/content/24/23/2776.abstract}, citeulike-linkout-2 = {http://bioinformatics.oxfordjournals.org/content/24/23/2776.full.pdf}, citeulike-linkout-3 = {http://bioinformatics.oxfordjournals.org/cgi/content/abstract/24/23/2776}, citeulike-linkout-4 = {http://view.ncbi.nlm.nih.gov/pubmed/18842598}, citeulike-linkout-5 = {http://www.hubmed.org/display.cgi?uids=18842598}, doi = {10.1093/bioinformatics/btn512}, issn = {1460-2059}, journal = {Bioinformatics}, keywords = {2gst, ngst}, month = {December}, number = {23}, pages = {2776--2777}, posted-at = {2008-12-05 23:07:36}, priority = {2}, title = {Efficient mapping of Applied Biosystems SOLiD sequence data to a reference genome for functional genomic applications}, url = {http://dx.doi.org/10.1093/bioinformatics/btn512}, volume = {24}, year = {2008} }

TY - JOUR ID - citeulike:3394239 L3 - citeulike-article-id:3394239 N2 - Summary: Here, we report the development of SOCS (short oligonucleotide color space), a program designed for efficient and flexible mapping of Applied Biosystems SOLiD sequence data onto a reference genome. SOCS performs its mapping within the context of color space', and it maximizes usable data by allowing a user-specified number of mismatches. Sequence census functions facilitate a variety of functional genomics applications, including transcriptome mapping and profiling, as well as ChIP-Seq. Availability: Executables, source code, and sample data are available at http://socs.biology.gatech.edu/ Contact: nickbergman@gatech.edu Supplementary information: Supplementary data are available at Bioinformatics Online. 10.1093/bioinformatics/btn512 IS - 23 JF - Bioinformatics SN - 1460-2059 EP - 2777 TI - Efficient mapping of Applied Biosystems SOLiD sequence data to a reference genome for functional genomic applications VL - 24 SP - 2776 KW - 2gst KW - ngst AU - Ondov, Brian AU - Varadarajan, Anjana AU - Passalacqua, Karla AU - Bergman, Nicholas PY - 2008/12/01/ UR - http://dx.doi.org/10.1093/bioinformatics/btn512 ER -