Genetics / Screens - Resources
Publications - last updated December, 2007
2007 | 2006 | 2005 | 2004 | 2003 | 2002
- Zaidel-Bar R, Itzkovitz S, Ma'ayan A, Iyengar R, Geiger B. Functional atlas of the integrin adhesome. Nat Cell Biol 2007; 9 (8):858-67 PubMed | CMC Update article.
- Zaidel-Bar R, Milo R, Kam Z, Geiger B. A paxillin tyrosine phosphorylation switch regulates the assembly and form of cell-matrix adhesions. J Cell Sci 2007; 120 (Pt 1):137-48 PubMed | CMC Update article.
2007 | 2006 | 2005 | 2004 | 2003 | 2002
- Ballestrem C, Erez N, Kirchner J, Kam Z, Bershadsky A, Geiger B. Molecular mapping of tyrosine-phosphorylated proteins in focal adhesions using fluorescence resonance energy transfer. J Cell Sci 2006; 119 (Pt 5):866-75 PubMed
- Cram EJ, Shang H, Schwarzbauer JE. A systematic RNA interference screen reveals a cell migration gene network in C. elegans. 2006; 119(Pt 23):4811-8. PubMed | CMC Update article.
- Luxenburg C, Addadi L, Geiger B. The molecular dynamics of osteoclast adhesions. Eur J Cell Biol 2006; 85 (3-4):203-11 PubMed | CMC Update article.
- Montell DJ. The social lives of migrating cells in Drosophila. Curr Opin Genet Dev 2006; 16 (4):374-83 PubMed | CMC Update article.
- Paran Y, Lavelin I, Naffar-Abu-Amara S, Winograd-Katz S, Liron Y, Geiger B, Kam Z. Development and application of automatic high-resolution light microscopy for cell-based screens. Methods Enzymol 2006; 414:228-47 PubMed | CMC Update article.
- Wang X, Adam JC, Montell D. Spatially localized Kuzbanian required for specific activation of Notch during border cell migration. Dev Biol 2006; 301(2):532-40 PubMed | CMC Update article.
- Wang X, Bo J, Bridges T, Dugan KD, Pan T-C, Chodosh L, Montell DJ. Analysis of cell migration using whole genome expression profiling of migratory cells in the Drosophila ovary. Dev. Cell 2006; 10 (4) 483-495 PubMed | CMC Update article.
- Witt AE, Hines LM, Collins NL, Hu Y, Gunawardane RN, Moreira D, Raphael J, Jepson D, Koundinya M, Rolfs A, Taron B, Isakoff SJ, Brugge JS, Labaer J. Functional Proteomics Approach to Investigate the Biological Activities of cDNAs Implicated in Breast Cancer. J Proteome Res. 2006; 5(3):599-610. PubMed | CMC Update article.
2007 | 2006 | 2005 | 2004 | 2003 | 2002
- Gunawardane RN, Sgroi DC, Wrobel CN, Koh E, Daley GQ, Brugge JS. Novel role for PDEF in epithelial cell migration and invasion. Cancer Res. 2005; 65(24):11572-80. PubMed
- Lavelin I, Geiger B. Characterization of a novel GTPase-activating protein associated with focal adhesions and the actin cytoskeleton. J Biol Chem. 2005; 280(8):7178-85. PubMed
- McDonald JA, Montell DJ. Analysis of cell migration using Drosophila as a model system. Methods Mol Biol. 2005; 294:175-202. PubMed
2007 | 2006 | 2005 | 2004 | 2003 | 2002
- Seton-Rogers SE, Lu Y, Hines LM, Koundinya M, LaBaer J, Muthuswamy SK, Brugge JS. Cooperation of the ErbB2 receptor and transforming growth factor beta in induction of migration and invasion in mammary epithelial cells. Proc Natl Acad Sci USA. 2004; 101(5):1257-62. PubMed
2007 | 2006 | 2005 | 2004 | 2003 | 2002
- Montell DJ. Border-cell migration: the race is on. Nat Rev Mol Cell Biol. 2003; 4(1):13-24. PubMed
2007 | 2006 | 2005 | 2004 | 2003 | 2002
- Manabe R, Whitmore L, Weiss JM, Horwitz AR. Identification of a novel microtubule-associated protein that regulates microtubule organization and cytokinesis by using a GFP-screening strategy. Curr Biol. 2002; 12(22):1946-51. PubMed
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Protein Discovery - Protocols & Procedures
Proteomics
- IP procedure for MS
- Desalting and Ion Exchange Procedures
- Protein Solubilization
- Silver Stain Methods
- Standard Digestion Protocols
- ZipTip Purification of peptides and proteins
- MS Sample Preparation
- LC-MS Analysis
- Protein Identification using SEQUEST
- TAP-Ras Protocols PDF
- SILAC Protocols (PDF)
- IMAC Enrichment of Phosphopeptides
- Stress Fiber Isolation
Expression
- Migratory cell purification protocol
- Screening protocol for cDNAs fused to GFP
- RNAi protocols for migration screen in C. elegans
- Scheme for RNAi screen
- Day-to-day protocol
- RNAi primers - reagants available on request
Software
- Blastpro
- BlastPro software, is a powerful new data mining tool that facilitates comparison of large proteomic and genomic datasets across species, database, and platform. This is now available for download here (readme.txt). This software is described in detail in Wang Y, Hanley R, Klemke RL. 2006 Computational methods for comparison of large genomic and proteomic datasets reveal protein markers of metastatic cancer. J Proteome Res. 5(4):907-15. PubMed
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Links
- Harvard Institute of Proteomics
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General Mass Spectometry resources
- http://i-mass.com/guide/protocol.html - General proteomics site containing information about protocols and resources
- http://ca.expasy.org/ - Proteomics tools and resources
- http://prospector.ucsf.edu/ - Mass spec data analysis
- http://depts.washington.edu/yeastrc/pages/ms_lesson0.html - General tandem mass spec information
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Mass Spectometry Protocols and Procedures
- http://www.ionsource.com/Card/ester/esters.htm - Making methyl esters
- http://www.ionsource.com/Card/cmc/why.htm - Reduction of proteins
- http://www.ionsource.com/Card/cmc/intro.htm - Reduction/alkylation of proteins
- http://www.healthsystem.virginia.edu/internet/biomolec/ingeldigest.cfm - Proteolysis
