Adaptive BLASTing through the Sequence Dataspace: Theories on Protein Sequence Embedding (2009)
Hong, Yoojin, Kang, Jaewoo, Lee, Dongwon, Patterson, Randen L., Van Rossum, Damian B.
We theorize that phylogenetic profiles provide a quantitative method that can relate the structural and functional properties of proteins, as well as their evolutionary relationships. A key feature...
Brainstorming through the Sequence Universe: Theories on the Protein Problem (2009)
Ko, Kyung Dae, Hong, Yoojin, Bhardwaj, Gaurav, Killick, Teresa M., Van Rossum, Damian B., Patterson, Randen L.
Just as physicists strive to develop a TOE (theory of everything), which explains and unifies the physical laws of the universe, the life-scientist wishes to uncover the TOE as it relates to cellular...
Record Linkage as DNA Sequence Alignment Problem (2009)
Yoojin Hong, Tao Yang, Jaewoo Kang, Dongwon Lee
Since modern database applications increasingly need to deal with dirty data due to a variety of reasons (e.g., data entry errors, heterogeneous formats, and ambiguous terms), considerable recent...
Phylogenetic Profiles Reveal Structural and Functional Determinants of Lipid-binding (2009)
Yoojin Hong, Dimitra Chalkia, Kyung Dae Ko, Gaurav Bhardwaj, Gue Su Chang, Et Al.
One of the major challenges in the genomic era is annotating structure/function to the vast quantities of sequence information now available. Indeed, most of the protein sequence database lacks...
Ko, Kyung Dae, Hong, Yoojin, Chang, Gue Su, Bhardwaj, Gaurav, Van Rossum, Damian B., Patterson, Randen L.
The sequence of amino acids in a protein is believed to determine its native state structure, which in turn is related to the functionality of the protein. In addition, information pertaining to...
Pollock: Automatic Generation of Virtual Web Services from Web Sites (2005)
Yi-hsuan Lu, Yoojin Hong, Jinesh Varia, Dongwon Lee
As the usage of Web Services proliferates dramatically, new tools to help quickly generate web services are needed. In this paper, we propose a methodology that helps to automatically generate Web...
System Support for Name Authority Control (2004)
Yoojin Hong, Byung-won On, Dongwon Lee
Abstract. In maintaining Digital Libraries, having bibliographic data up-to-date is critical, yet often minor irregularities may cause information isolation. Unlike documents for which various kinds...
Chang, Gue Su, Hong, Yoojin, Ko, Kyung Dae, Bhardwaj, Gaurav, Holmes, Edward C., Patterson, Randen L., ...
Inferring evolutionary relationships among highly divergent protein sequences is a daunting task. In particular, when pairwise sequence alignments between protein sequences fall
Phylogenetic profiles reveal structural/functional determinants of TRPC3 signal-sensing antennae
Ko, Kyung Dae, Bhardwaj, Gaurav, Hong, Yoojin, Chang, Gue Su, Kiselyov, Kirill, Van Rossum, Damian B, ...
Biochemical assessment of channel structure/function is incredibly challenging. Developing computational tools that provide these data would enable translational research, accelerating mechanistic...