We have generated a genomic phenotyping database identifying hundreds of Saccharomyces cerevisiae genes important for viable cellular recovery after mutagen exposure. Systematic phenotyping of 1,615 gene deletion strains produced distinctive signatures for each of four mutagens. Integration of the phenotyping database with mutagen-induced transcriptional profiling data demonstrated that being t...

Improving crops yield under water-limited conditions is the most daunting challenge faced by breeders. To this end, accurate, relevant phenotyping plays an increasingly pivotal role for the selection of drought-resilient genotypes and, more in general, for a meaningful dissection of the quantitative genetic landscape that underscores the adaptive response of crops to drought. A major and univer...

Post-genomic research deals with challenging problems in screening genomes of organisms for particular functions or potential for being the targets of genetic engineering for desirable biological features. ‘Phenotyping’ of wild type and mutants is a time-consuming and costly effort by many individuals. This article is a preliminary progress report in research on large-scale automation of phenot...

In addition to their promise in regenerative medicine, pluripotent stem cells have proved to be faithful models of many human diseases. In particular, patient-specific stem cell-derived cardiomyocytes recapitulate key features of several life-threatening cardiac arrhythmia syndromes. For both modeling and regenerative approaches, phenotyping of stem cell-derived tissues is critical. Cellular ph...

The ability to automatically correlate observable characteristics of plants to their underlying genetics will streamline selection methods in plant breeding which in-turn will help improve crop yields. Measurement of observable plant characteristics is called phenotyping. Currently established methods for phenotyping in the field are labour intensive, error prone and have limited throughput. Th...

Rice improvement breeding is one of the most important research fields in China. With the development of modern rice breeding technology, hundreds to thousands of new varieties are produced daily, creating the impetus for rapid plant phenotyping evaluation. However, traditional measurement is inefficiency, contact-interferential, and lack-objectivity. Thus a high-throughput and automatic extrac...

Supervised learning is the dominant approach to automatic electronic health records-based phenotyping, but it is expensive due to the cost of manual chart review. Semi-supervised learning takes advantage of both scarce labeled and plentiful unlabeled data. In this work, we study a family of semi-supervised learning algorithms based on Expectation Maximization (EM) in the context of several phen...

Phenotyping cells and tracking their functional states are key tasks in cell biology and molecular medicine. Current cell classification methods are idiosyncratic to specific fields and based on ad hoc discovery of presumed univariate markers. We propose a general theory of phenotyping based on broadly distributed multivariate markers as the metrics of classification and standard pattern recogn...

Because of recent advances in instrumentation, immunological reagents, and methods for measuring a variety of cell constituents and functions, there has been increasing interest in clinical applications of flow cytometry. Several commercially available flow cytometers and a growing list of monoclonal antibodies make it feasible for clinical laboratories to apply this technology for phenotyping ...

Lewis phenotypes using various types of specimen were compared with the Lewis phenotype predicted from Lewis and Secretor genotypes. This is the first logical step in explaining the association between the Lewis expression and Helicobacter pylori. We performed a study of the followings on 209 patients who underwent routine gastroscopy: erythrocyte and saliva Lewis phenotyping, gastric Lewis phe...