Collaborations

• Fission yeast gene-finding: Machida Lab (NIBH) and Yanagida Lab (Kyoto U.).

• Alternative Splicing Database Project: Stamm Lab (Max-Planck) and Nakai Lab (Osaka).

• SR Proteins and Their Recognition Motifs: Krainer Lab (CSHL).

• Novel Splicing Factors: Mayeda Lab (Miami Med. School).

• Splicing Enhancers, CNR gene clusters: Maniatis Lab (Harvard).

• Cell cycle regulated genes and promoter elements in yeast : Futcher Lab (CSHL), Brown and Botstein Labs (Stanford).

• Tumor Suppressor Loci Project: McCombie and Wigler Labs (CSHL).

• Nucleosome structure in promoter sequences Trifonov lab (Weizmann Institute).

• Translational features in eukaryotic mRNAs Kolchanov lab and Kel (Institute of Cytology and Genetics, Russian Academy of Sciences).

• Statistical characterization of 5'UTRs, ESTs and full length cDNAs Sugano lab (U. of Tokyo).

• Computational gene expression array analysis tools Domany lab (Weizmann Institute).

• E2F and Mammalian Cell Cycle Regugation : Farnham Lab (U. of Wisconsin), Kel and Wingender Labs (Biobase).

• Large-scale expression study on differentiation of mammalian stem cells : Minoru Ko Lab (NIA/NIH).

• Fiber-optic chip based detection of alternative splicing variants in human and mouse at genome-scale : X-D Fu Lab (UCSD), J-B Fan Lab Illumina and M.Gribskov (UCSD).

• Mapping transcription factor binding sites in mammalian genomes. Bing Ren Lab (USCD).

• Neuronal Genomics of Learning and Memory. Tim Tully, Joshua Dubnau, Yi Zhong, A. Chiang Labs (CSHL, Tsinghua at Taiwan)

• RNAi and Argonaute gene family. Greg Hannon Lab (CSHL)

• Developing high throughput technologies for discovery mammalian first exons and novel gene transcripts. Dick McCombie, Greg Hannon Labs (CSHL); Sam Wang Lab (Chicargo); Lisa Stubbs Lab (LLNL)

• DNA Methylation patterns and epigenetic changes in the human genome. Tim Bestor Lab (Columbia U.)

• Mammalian Olfactory genes regulation. Stuart Firestein Lab (Columbia U)

• Maximum Spanning Tree based pattern clustering and discovery algorithms. Ying Xu Lab (ORNL)

• Bioinformatics Research at the Institute of Bioinformatics in China. Yanda Li and Xuegong Zhang Labs (Tsinghua U at Beijing)

• Transcriptional regulatory network of endocrine pancreas specific genes. Shuo Lin Lab (UCLA)

• Noncoding RNAs and gene expression regulation. David Spector (CSHL)

• Neuronal Stem Cell differentiation. Grisha Enikolopov (CSHL)

• Gene regulation networks in aging. Anne Brunet (Stanford), Bob Tijian (Berkeley), Alea Mills (CSHL)

• Fat regulation network in adipose issue. Evan Rosen (BIDMC), Dawei Gong (U. Maryland)

• Small gene finding in the human genome. I. Humphery-Smith (Utrecht University, The Netherlands)