A serial analysis of gene expression (SAGE) library is a collection of thousands of small DNA "tags," each of which represents a distinct messenger RNA (mRNA) transcript. Existing methods have been proposed for analyzing single library data (i.e., one library per group) or one tag at a time. The practice of lumping all libraries together (in a multi-library setting) to form a "mega" library for...

The mariner-based Himar1 system has been utilized for creating mutant libraries of many Gram-positive bacteria. Streptococcus suis serotype 2 (SS2) and Streptococcus equi ssp. zooepidemicus (SEZ) are primary pathogens of swine that threaten the swine industry in China. To provide a forward-genetics technology for finding virulent phenotype-related genes in these two pathogens, we constructed a ...

As a general strategy for function-based gene identification, an shRNA library containing approximately 150 shRNAs per gene was enzymatically generated from normalized (reduced-redundance) human cDNA. The library was constructed in an inducible lentiviral vector, enabling propagation of growth-inhibiting shRNAs and controlled activity measurements. RNAi activities were measured for 101 shRNA cl...

Identification of the key genes related to mammary gland development in the dairy goat is important for optimizing milk production. In this research, after comparing the expression of ESTs in 7 Long-SAGE libraries corresponding to different stages of development (early virgin, late virgin, early pregnancy, late pregnancy, middle lactation, early involution and late involution) and sequence alig...

The EST data provide a powerful tool for identi cation of transcribed DNA sequences. However, since ESTs are relatively short, many exons are poorly covered by ESTs thus reducing the utility of EST data. Recently, SST (Signature Sequence Tags) ngerprints were proposed as an alternative to EST ngerprints. Given a ngerprint set of probes, SST of a clone is a subset of probes from the ngerprint se...

We have constructed a library of Balb/c mouse embryo DNA in the vector Charon 4A. The library was searched for sequences homologous to the VH region of a cloned cDNA of the UPC10 heavy chain mRNA. In this paper, we describe the structure and the partial nucleotide sequence of one of such clones (VH441). The nucleotide sequence of this germ-line gene indicates that it encodes amino-acids 1-98 of...

As part of Advanced Library Services project at the National Library of Medicine, we are creating a very large Biomedical Knowledge Repository (BKR), which serves as background knowledge for applications including knowledge discovery and multidocument summarization [1]. The BKR integrates relations extracted from the biomedical literature (e.g., Medline citations) and from structured knowledge ...

The study of gene functions requires high quality of a DNA library. A large amount of testing and screening needs to be performed to obtain a highquality DNA library. Therefore, the efficiency of testing and screening becomes very important. Pooling design is a very helpful tool, which has developed a lot of applications in molecular biology. In this chapter, we introduce recent developments in...

The study of gene functions requires the development of a DNA library of high quality through much of testing and screening. Pooling design is a mathematical tool to reduce the number of tests for DNA library screening. The transversal design is a special type of pooling design, which is good in implementation. In this paper, we present a new construction for transversal designs. We will also e...