Dapeng Xu | PubMed Health

PubMed2006

Redescriptions of two marine planktonic ciliates from China, Parastrombidium faurei (Kahl, 1932) Maeda, 1986 and Strombidium capitatum (Leegaard, 1915) Kahl, 1932 (Ciliophora, Oligotrichea).

The morphology and infraciliature of two marine planktonic ciliates, Parastrombidium faurei (Kahl, 1932) Maeda, 1986 and Strombidium capitatum (Leegaard, 1915) Kahl, 1932, from coastal waters near Qingdao (Tsingtao), northern China, were investigated based on live observation and protargol impregnation. This is the first time that these two species are reported from Yellow Sea/North Pacific. Emended diagnoses for the genus Parastrombidium and its single species P. faurei are provided as they were not studied with modern methods before. The ciliary pattern and the stomatogenesis of Parastrombidium indicate that it belongs to the order Choreotrichida Small and Lynn, 1985, family Strombidinopsidae Small and Lynn, 1985. An updated description for the "well-known"Strombidium capitatum is also included based on the Qingdao population.

Animals↗

PubMed2004

GECKO: a complete large-scale gene expression analysis platform.

BACKGROUND: Gecko (Gene Expression: Computation and Knowledge Organization) is a complete, high-capacity centralized gene expression analysis system, developed in response to the needs of a distributed user community. RESULTS: Based on a client-server architecture, with a centralized repository of typically many tens of thousands of Affymetrix scans, Gecko includes automatic processing pipelines for uploading data from remote sites, a data base, a computational engine implementing approximately 50 different analysis tools, and a client application. Among available analysis tools are clustering methods, principal component analysis, supervised classification including feature selection and cross-validation, multi-factorial ANOVA, statistical contrast calculations, and various post-processing tools for extracting data at given error rates or significance levels. On account of its open architecture, Gecko also allows for the integration of new algorithms. The Gecko framework is very general: non-Affymetrix and non-gene expression data can be analyzed as well. A unique feature of the Gecko architecture is the concept of the Analysis Tree (actually, a directed acyclic graph), in which all successive results in ongoing analyses are saved. This approach has proven invaluable in allowing a large (approximately 100 users) and distributed community to share results, and to repeatedly return over a span of years to older and potentially very complex analyses of gene expression data. CONCLUSIONS: The Gecko system is being made publicly available as free software http://sourceforge.net/projects/geckoe. In totality or in parts, the Gecko framework should prove useful to users and system developers with a broad range of analysis needs.

Carcinoma↗