- Using multiple alignments to improve seeded local alignment algorithmsJason Flannick
Department of Computer Science, Stanford University, Stanford, CA 94304, USA
Nucleic Acids Res 33:4563-77. 2005..This suggests that when applied on a whole-genome scale, Typhon should provide improved homology searches in time comparable to existing algorithms...
- Automatic parameter learning for multiple local network alignmentJason Flannick
Department of Computer Science, Stanford University, Stanford, CA 94305, USA
J Comput Biol 16:1001-22. 2009..We show that, on each of these datasets, Graemlin 2.0 has higher sensitivity and specificity than existing network aligners. Graemlin 2.0 is available under the GNU public license at http://graemlin.stanford.edu ...
- Graemlin: general and robust alignment of multiple large interaction networksJason Flannick
Department of Computer Science, Stanford University, Stanford, California 94305, USA
Genome Res 16:1169-81. 2006..We find that Graemlin achieves substantial scalability gains over previous methods while improving sensitivity...
- A universal carrier test for the long tail of Mendelian diseaseBalaji S Srinivasan
Counsyl, Redwood Shores, CA, USA
Reprod Biomed Online 21:537-51. 2010..Moreover, given that the assay is inexpensive and requires only a saliva sample, it is now increasingly feasible to make carrier testing a routine part of preconception care...