Structural recognition

To become familiar with various methods and tools for full structure recognition and the search in structural datasets. 

RH Lathi op, IR Rogers Ir, TE Smith, IV White. A Bayes-optimal sequence-structure theory that unifies protein sequence-structure recognition and alignment. Bull Math Biol 60 1039-1071, 1998. 

Structure, recognition, and processing of cisplatin-DNA adducts 99CRV2467. 

Student Relationships. Establishing and retaining the identity of students in an interdisciplinary program can be a concern, deriving from reward structure, recognition, jobs, etc., in the outside world. If our experience is a useful... 

Iyer VN, Szybalski W (1963) A molecular mechanism of mitomycin action Linking of complementary DNA strands. Proc Natl Acad Sci U S A 50 355-362 Jamieson ER, Lippard SJ (1999) Structure, recognition, and processing of cisplatin-DNA adducts. Chem... 

Synthesis and Structural Recognition Studies of Protein Phosphatases... 

Our synthesis of OKA and TTM provided various opportunities for collaborating with biochemists, and this collaboration has given birth to our expanding interests toward structural recognition between protein phosphatases (PP) and inhibitors such as OKA or TTM (5). OKA has strong inhibitory effect... 

Biomolecular Structural Recognition and Docking Allowing Conformational Flexibility. 

Ibison, P, Kam, F., Simpson, R.W., Tonnelier, C., Venczel, T., and Johnson, A.P. 1992. Chemical structure recognition and generic text interpretation in the CLiDE Project. Proceedings on Online Information 92, London. 

Clearly, there is a pressing need for an equivalent to optical character recognition, optical chemical structure recognition, that can automatically turn bitmapped structural diagrams into structure descriptions—connection tables or equivalent structural strings—that are suitable for input into chemical structure databases. 

Before optical structure recognition methods can be applied to a document, the chemical images in the document must be identified and separated from the rest of the document so subsequent processing stages can operate exclusively on the... 

The following sections describe the structure recognition methods implemented in the various systems. 

Interpretation of generic, or Markush, structures is a very useful but nontrivial task, and from the published work, it appears that so far, CLiDE is the only system among the various structure recognition systems introduced in Projects, above, that addresses the problem of generic structure interpretation. 

Though far from perfect, at least some of the various recognition methods described in this chapter can yield impressive recognition results. Figure 4.20 shows some structure diagrams that are correctly interpreted by optical structure recognition within a few seconds. Manual reproduction of these structures would require considerably more time and be error prone. 

It should be recognized that structure recognition on its own is only a part of the problem of extracting chemical information from documents. The data associated... 

It should be recognized that automated name recognition provides a realistic alternative to optical structure recognition in many cases. Indeed, the two techniques are complementary there are many cases where either no name is given (particularly common with complicated structures) or the name is insufficiently precise to convey the full structural information (including stereochemistry). The ideal system would incorporate both techniques and use either whichever is more appropriate in a given situation, or even both in parallel to provide an accuracy check. 

Diverse text mining approaches have been successfully applied to the scientific literature in biology and medicine. The situation is less well developed for the chemical literature because of the focus on compound structures rather than text. The advent of optical structure recognition offers the promise that mining the chemical literature will be even more successful than it is in these other fields of scientific endeavor. 

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