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- Abramov Vyacheslav M., Vasiliev Anatoly M., Khlebnikov Valentin S., Vasilenko Raisa N., Kulikova Nataly L., Kosarev Igor V., Ishchenko Alexander T., Gillespie Joel R., Millett Ian S., Fink Anthony L. Structural and functional properties of Yersinia pestis Caf1 capsular antigen and their possible role in fulminant development of primary pneumonic plague. J Proteome Res. 2002 Jul-Aug;1(4):307–315. doi: 10.1021/pr025511u. [DOI] [PubMed] [Google Scholar]
- Abs El-Osta Youssef G., Hillier Alan J., Davidson Barrie E., Dobos Marian. Pulsed-field gel electrophoretic analysis of the genome of Lactobacillus gasseri ATCC33323, and construction of a physical map. Electrophoresis. 2002 Sep;23(19):3321–3331. doi: 10.1002/1522-2683(200210)23:19<3321::AID-ELPS3321>3.0.CO;2-G. [DOI] [PubMed] [Google Scholar]
- Adriaenssens Eric, Lemoine Jérôme, El Yazidi-Belkoura Ikram, Hondermarck Hubert. Growth signaling in breast cancer cells: outcomes and promises of proteomics. Biochem Pharmacol. 2002 Sep;64(5-6):797–803. doi: 10.1016/s0006-2952(02)01141-3. [DOI] [PubMed] [Google Scholar]
- Ajdić Dragana, McShan William M., McLaughlin Robert E., Savić Gorana, Chang Jin, Carson Matthew B., Primeaux Charles, Tian Runying, Kenton Steve, Jia Honggui. Genome sequence of Streptococcus mutans UA159, a cariogenic dental pathogen. Proc Natl Acad Sci U S A. 2002 Oct 23;99(22):14434–14439. doi: 10.1073/pnas.172501299. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Andon Nancy L., Hollingworth Sarah, Koller Antonius, Greenland Andrew J., Yates John R., 3rd, Haynes Paul A. Proteomic characterization of wheat amyloplasts using identification of proteins by tandem mass spectrometry. Proteomics. 2002 Sep;2(9):1156–1168. doi: 10.1002/1615-9861(200209)2:9<1156::AID-PROT1156>3.0.CO;2-4. [DOI] [PubMed] [Google Scholar]
- Arthur John M., Thongboonkerd Visith, Scherzer Janice A., Cai Jian, Pierce William M., Klein Jon B. Differential expression of proteins in renal cortex and medulla: a proteomic approach. Kidney Int. 2002 Oct;62(4):1314–1321. doi: 10.1111/j.1523-1755.2002.kid588.x. [DOI] [PubMed] [Google Scholar]
- Asano Takayuki, Masumura Takehiro, Kusano Hiroaki, Kikuchi Shoshi, Kurita Akihiro, Shimada Hiroaki, Kadowaki Koh-Ichi. Construction of a specialized cDNA library from plant cells isolated by laser capture microdissection: toward comprehensive analysis of the genes expressed in the rice phloem. Plant J. 2002 Nov;32(3):401–408. doi: 10.1046/j.1365-313x.2002.01423.x. [DOI] [PubMed] [Google Scholar]
- Ayoubi Patricia, Jin Xiaojing, Leite Saul, Liu Xianghui, Martajaja Jeson, Abduraham Abdurashid, Wan Qiaolan, Yan Wei, Misawa Eduardo, Prade Rolf A. PipeOnline 2.0: automated EST processing and functional data sorting. Nucleic Acids Res. 2002 Nov 1;30(21):4761–4769. doi: 10.1093/nar/gkf585. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Azuaje Francisco. In silico approaches to microarray-based disease classification and gene function discovery. Ann Med. 2002;34(4):299–305. doi: 10.1080/078538902320322565. [DOI] [PubMed] [Google Scholar]
- Backhus L. E., DeRisi J., Bisson L. F. Functional genomic analysis of a commercial wine strain of Saccharomyces cerevisiae under differing nitrogen conditions. FEMS Yeast Res. 2001 Jul;1(2):111–125. doi: 10.1111/j.1567-1364.2001.tb00022.x. [DOI] [PubMed] [Google Scholar]
- Backovic Marija, Gettins Peter G. W. Insight into residues critical for antithrombin function from analysis of an expanded database of sequences that includes frog, turtle, and ostrich antithrombins. J Proteome Res. 2002 Jul-Aug;1(4):367–373. doi: 10.1021/pr025515z. [DOI] [PubMed] [Google Scholar]
- Bailey Steve N., Wu Randy Z., Sabatini David M. Applications of transfected cell microarrays in high-throughput drug discovery. Drug Discov Today. 2002 Sep 15;7(18 Suppl):S113–S118. doi: 10.1016/s1359-6446(02)02386-3. [DOI] [PubMed] [Google Scholar]
- Bakay Marina, Zhao Po, Chen Josephine, Hoffman Eric P. A web-accessible complete transcriptome of normal human and DMD muscle. Neuromuscul Disord. 2002 Oct;12 (Suppl 1):S125–S141. doi: 10.1016/s0960-8966(02)00093-7. [DOI] [PubMed] [Google Scholar]
- Basile Vincenzo S., Masellis Mario, Potkin Steven G., Kennedy James L. Pharmacogenomics in schizophrenia: the quest for individualized therapy. Hum Mol Genet. 2002 Oct 1;11(20):2517–2530. doi: 10.1093/hmg/11.20.2517. [DOI] [PubMed] [Google Scholar]
- Baty James W., Hampton Mark B., Winterbourn Christine C. Detection of oxidant sensitive thiol proteins by fluorescence labeling and two-dimensional electrophoresis. Proteomics. 2002 Sep;2(9):1261–1266. doi: 10.1002/1615-9861(200209)2:9<1261::AID-PROT1261>3.0.CO;2-Q. [DOI] [PubMed] [Google Scholar]
- Beckering Carsten L., Steil Leif, Weber Michael H. W., Völker Uwe, Marahiel Mohamed A. Genomewide transcriptional analysis of the cold shock response in Bacillus subtilis. J Bacteriol. 2002 Nov;184(22):6395–6402. doi: 10.1128/JB.184.22.6395-6402.2002. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Berezikov Eugene, Plasterk Ronald H. A., Cuppen Edwin. GENOTRACE: cDNA-based local GENOme assembly from TRACE archives. Bioinformatics. 2002 Oct;18(10):1396–1397. doi: 10.1093/bioinformatics/18.10.1396. [DOI] [PubMed] [Google Scholar]
- Berger Scott J., Lee Sang-Won, Anderson Gordon A., Pasa-Tolić Lijana, Tolić Nikola, Shen Yufeng, Zhao Rui, Smith Richard D. High-throughput global peptide proteomic analysis by combining stable isotope amino acid labeling and data-dependent multiplexed-MS/MS. Anal Chem. 2002 Oct 1;74(19):4994–5000. doi: 10.1021/ac020105f. [DOI] [PubMed] [Google Scholar]
- Bernaudin Myriam, Tang Yang, Reilly Melinda, Petit Edwige, Sharp Frank R. Brain genomic response following hypoxia and re-oxygenation in the neonatal rat. Identification of genes that might contribute to hypoxia-induced ischemic tolerance. J Biol Chem. 2002 Jul 26;277(42):39728–39738. doi: 10.1074/jbc.M204619200. [DOI] [PubMed] [Google Scholar]
- Beske Oren E., Goldbard Simon. High-throughput cell analysis using multiplexed array technologies. Drug Discov Today. 2002 Sep 15;7(18 Suppl):S131–S135. doi: 10.1016/s1359-6446(02)02388-7. [DOI] [PubMed] [Google Scholar]
- Bhattacharyya Anamitra, Stilwagen Stephanie, Reznik Gary, Feil Helene, Feil William S., Anderson Iain, Bernal Axel, D'Souza Mark, Ivanova Natalia, Kapatral Vinayak. Draft sequencing and comparative genomics of Xylella fastidiosa strains reveal novel biological insights. Genome Res. 2002 Oct;12(10):1556–1563. doi: 10.1101/gr.370702. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Birney Ewan, Clamp Michele, Hubbard Tim. Databases and tools for browsing genomes. Annu Rev Genomics Hum Genet. 2002 Apr 15;3:293–310. doi: 10.1146/annurev.genom.3.030502.101529. [DOI] [PubMed] [Google Scholar]
- Blonder Josip, Goshe Michael B., Moore Ronald J., Pasa-Tolic Ljiljana, Masselon Christophe D., Lipton Mary S., Smith Richard D. Enrichment of integral membrane proteins for proteomic analysis using liquid chromatography-tandem mass spectrometry. J Proteome Res. 2002 Jul-Aug;1(4):351–360. doi: 10.1021/pr0255248. [DOI] [PubMed] [Google Scholar]
- Borodovsky Anna, Ovaa Huib, Kolli Nagamalleswari, Gan-Erdene Tudeviin, Wilkinson Keith D., Ploegh Hidde L., Kessler Benedikt M. Chemistry-based functional proteomics reveals novel members of the deubiquitinating enzyme family. Chem Biol. 2002 Oct;9(10):1149–1159. doi: 10.1016/s1074-5521(02)00248-x. [DOI] [PubMed] [Google Scholar]
- Bradley Brian P., Shrader Elizabeth A., Kimmel David G., Meiller Jessica C. Protein expression signatures: an application of proteomics. Mar Environ Res. 2002 Sep-Dec;54(3-5):373–377. doi: 10.1016/s0141-1136(02)00115-0. [DOI] [PubMed] [Google Scholar]
- Brazhnik Paul, de la Fuente Alberto, Mendes Pedro. Gene networks: how to put the function in genomics. Trends Biotechnol. 2002 Nov;20(11):467–472. doi: 10.1016/s0167-7799(02)02053-x. [DOI] [PubMed] [Google Scholar]
- Breyne Peter, Dreesen Rozemarijn, Vandepoele Klaas, De Veylder Lieven, Van Breusegem Frank, Callewaert Lindy, Rombauts Stephane, Raes Jeroen, Cannoot Bernard, Engler Gilbert. Transcriptome analysis during cell division in plants. Proc Natl Acad Sci U S A. 2002 Oct 22;99(23):14825–14830. doi: 10.1073/pnas.222561199. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Brody James P., Williams Brian A., Wold Barbara J., Quake Stephen R. Significance and statistical errors in the analysis of DNA microarray data. Proc Natl Acad Sci U S A. 2002 Sep 16;99(20):12975–12978. doi: 10.1073/pnas.162468199. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Brunner Dani, Nestler Eric, Leahy Emer. In need of high-throughput behavioral systems. Drug Discov Today. 2002 Sep 15;7(18 Suppl):S107–S112. doi: 10.1016/s1359-6446(02)02423-6. [DOI] [PubMed] [Google Scholar]
- Calvo Alfonso, Xiao Nianqing, Kang Jason, Best Carolyn J. M., Leiva Isabel, Emmert-Buck Michael R., Jorcyk Cheryl, Green Jeffrey E. Alterations in gene expression profiles during prostate cancer progression: functional correlations to tumorigenicity and down-regulation of selenoprotein-P in mouse and human tumors. Cancer Res. 2002 Sep 15;62(18):5325–5335. [PubMed] [Google Scholar]
- Carson James P., Thaller Christina, Eichele Gregor. A transcriptome atlas of the mouse brain at cellular resolution. Curr Opin Neurobiol. 2002 Oct;12(5):562–565. doi: 10.1016/s0959-4388(02)00356-2. [DOI] [PubMed] [Google Scholar]
- Chalmers Derek T., Behan Dominic P. The use of constitutively active GPCRs in drug discovery and functional genomics. Nat Rev Drug Discov. 2002 Aug;1(8):599–608. doi: 10.1038/nrd872. [DOI] [PubMed] [Google Scholar]
- Chan Leo Lai, Lo Samuel Chun-Lap, Hodgkiss Ivor John. Proteomic study of a model causative agent of harmful red tide, Prorocentrum triestinum I: Optimization of sample preparation methodologies for analyzing with two-dimensional electrophoresis. Proteomics. 2002 Sep;2(9):1169–1186. doi: 10.1002/1615-9861(200209)2:9<1169::AID-PROT1169>3.0.CO;2-L. [DOI] [PubMed] [Google Scholar]
- Chaurand Pierre, Caprioli Richard M. Direct profiling and imaging of peptides and proteins from mammalian cells and tissue sections by mass spectrometry. Electrophoresis. 2002 Sep;23(18):3125–3135. doi: 10.1002/1522-2683(200209)23:18<3125::AID-ELPS3125>3.0.CO;2-#. [DOI] [PubMed] [Google Scholar]
- Chelius Dirk, Bondarenko Pavel V. Quantitative profiling of proteins in complex mixtures using liquid chromatography and mass spectrometry. J Proteome Res. 2002 Jul-Aug;1(4):317–323. doi: 10.1021/pr025517j. [DOI] [PubMed] [Google Scholar]
- Chen Jianjun, Sun Miao, Lee Sanggyu, Zhou Guolin, Rowley Janet D., Wang San Ming. Identifying novel transcripts and novel genes in the human genome by using novel SAGE tags. Proc Natl Acad Sci U S A. 2002 Sep 4;99(19):12257–12262. doi: 10.1073/pnas.192436499. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chen Jinzhi, Lee Cheng S., Shen Yufeng, Smith Richard D., Baehrecke Eric H. Integration of capillary isoelectric focusing with capillary reversed-phase liquid chromatography for two-dimensional proteomics separation. Electrophoresis. 2002 Sep;23(18):3143–3148. doi: 10.1002/1522-2683(200209)23:18<3143::AID-ELPS3143>3.0.CO;2-7. [DOI] [PubMed] [Google Scholar]
- Chen Wen, Ji Jianguo, Zhao Rui, Ru Binggen. Comparative proteome analysis of human temporal cortex lobes by two-dimensional electrophoresis and identification of selected common proteins. Neurochem Res. 2002 Sep;27(9):871–881. doi: 10.1023/a:1020383313177. [DOI] [PubMed] [Google Scholar]
- Chen Z-Y, Brown R. L., Damann K. E., Cleveland T. E. Identification of unique or elevated levels of kernel proteins in aflatoxin-resistant maize genotypes through proteome analysis. Phytopathology. 2002 Oct;92(10):1084–1094. doi: 10.1094/PHYTO.2002.92.10.1084. [DOI] [PubMed] [Google Scholar]
- Cheung Pik-Yuen, Lai Wan-Ping, Lau Hoi-Yan, Lo Samuel Chun-Lap, Wong Man-Sau. Acute and chronic effect of dietary phosphorus restriction on protein expression in young rat renal proximal tubules. Proteomics. 2002 Sep;2(9):1211–1219. doi: 10.1002/1615-9861(200209)2:9<1211::AID-PROT1211>3.0.CO;2-#. [DOI] [PubMed] [Google Scholar]
- Cho Sang Yun, Park Kang-Sik, Shim Jung Eun, Kwon Min-Seok, Joo Kil Hong, Lee Won Suk, Chang Joon, Kim Hoguen, Chung Hyun Cheol, Kim Hyun Ok. An integrated proteome database for two-dimensional electrophoresis data analysis and laboratory information management system. Proteomics. 2002 Sep;2(9):1104–1113. doi: 10.1002/1615-9861(200209)2:9<1104::AID-PROT1104>3.0.CO;2-Q. [DOI] [PubMed] [Google Scholar]
- Chou Kuo-Chen, Elrod David W. Bioinformatical analysis of G-protein-coupled receptors. J Proteome Res. 2002 Sep-Oct;1(5):429–433. doi: 10.1021/pr025527k. [DOI] [PubMed] [Google Scholar]
- Colangelo Vittorio, Schurr Jill, Ball Melvyn J., Pelaez Ricardo Palacios, Bazan Nicolas G., Lukiw Walter J. Gene expression profiling of 12633 genes in Alzheimer hippocampal CA1: transcription and neurotrophic factor down-regulation and up-regulation of apoptotic and pro-inflammatory signaling. J Neurosci Res. 2002 Nov 1;70(3):462–473. doi: 10.1002/jnr.10351. [DOI] [PubMed] [Google Scholar]
- Cole Stewart T. Comparative and functional genomics of the Mycobacterium tuberculosis complex. Microbiology. 2002 Oct;148(Pt 10):2919–2928. doi: 10.1099/00221287-148-10-2919. [DOI] [PubMed] [Google Scholar]
- Cordwell Stuart J., Larsen Martin R., Cole Rebecca T., Walsh Bradley J. Comparative proteomics of Staphylococcus aureus and the response of methicillin-resistant and methicillin-sensitive strains to Triton X-100. Microbiology. 2002 Sep;148(Pt 9):2765–2781. doi: 10.1099/00221287-148-9-2765. [DOI] [PubMed] [Google Scholar]
- Crabb John W., Miyagi Masaru, Gu Xiaorong, Shadrach Karen, West Karen A., Sakaguchi Hirokazu, Kamei Motohiro, Hasan Azeem, Yan Lin, Rayborn Mary E. Drusen proteome analysis: an approach to the etiology of age-related macular degeneration. Proc Natl Acad Sci U S A. 2002 Oct 21;99(23):14682–14687. doi: 10.1073/pnas.222551899. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Dahl Svein G., Kristiansen Kurt, Sylte Ingebrigt. Bioinformatics: from genome to drug targets. Ann Med. 2002;34(4):306–312. doi: 10.1080/078538902320322574. [DOI] [PubMed] [Google Scholar]
- Dare Theo O., Davies Huw A., Turton John A., Lomas Lee, Williams Thomas C., York Malcom J. Application of surface-enhanced laser desorption/ionization technology to the detection and identification of urinary parvalbumin-alpha: a biomarker of compound-induced skeletal muscle toxicity in the rat. Electrophoresis. 2002 Sep;23(18):3241–3251. doi: 10.1002/1522-2683(200209)23:18<3241::AID-ELPS3241>3.0.CO;2-D. [DOI] [PubMed] [Google Scholar]
- Dayal Bishambar, Ertel Norman H. ProteinChip technology: a new and facile method for the identification and measurement of high-density lipoproteins apoA-I and apoA-II and their glycosylated products in patients with diabetes and cardiovascular disease. J Proteome Res. 2002 Jul-Aug;1(4):375–380. doi: 10.1021/pr010008n. [DOI] [PubMed] [Google Scholar]
- De Vos John, Thykjaer Thomas, Tarte Karin, Ensslen Matthias, Raynaud Pierre, Requirand Guilhem, Pellet Florence, Pantesco Véronique, Rème Thierry, Jourdan Michel. Comparison of gene expression profiling between malignant and normal plasma cells with oligonucleotide arrays. Oncogene. 2002 Oct 3;21(44):6848–6857. doi: 10.1038/sj.onc.1205868. [DOI] [PubMed] [Google Scholar]
- Delinsky David C., Greis Kenneth D. Capillary chromatography-coupled mass spectrometry with column switching for rapid identification of proteins from 2-dimensional electrophoresis gels. J Proteome Res. 2002 May-Jun;1(3):279–284. doi: 10.1021/pr020004y. [DOI] [PubMed] [Google Scholar]
- Devreese B., Janssen K. P. C., Vanrobaeys F., Van Herp F., Martens G. J. M., Van Beeumen J. Automated nanoflow liquid chromatography-tandem mass spectrometry for a differential display proteomic study on Xenopus laevis neuroendocrine cells. J Chromatogr A. 2002 Nov 8;976(1-2):113–121. doi: 10.1016/s0021-9673(02)01153-6. [DOI] [PubMed] [Google Scholar]
- Dewey T. Gregory. From microarrays to networks: mining expression time series. Drug Discov Today. 2002 Oct 15;7(20 Suppl):S170–S175. doi: 10.1016/s1359-6446(02)02440-6. [DOI] [PubMed] [Google Scholar]
- Diehl Susanne, Diehl Frank, El-Sayed Najib M., Clayton Christine, Hoheisel Jörg D. Analysis of stage-specific gene expression in the bloodstream and the procyclic form of Trypanosoma brucei using a genomic DNA-microarray. Mol Biochem Parasitol. 2002 Aug 28;123(2):115–123. doi: 10.1016/s0166-6851(02)00138-x. [DOI] [PubMed] [Google Scholar]
- Dierick Jean-François, Eliaers François, Remacle José, Raes Martine, Fey Stephen J., Larsen Peter Mose, Toussaint Olivier. Stress-induced premature senescence and replicative senescence are different phenotypes, proteomic evidence. Biochem Pharmacol. 2002 Sep;64(5-6):1011–1017. doi: 10.1016/s0006-2952(02)01171-1. [DOI] [PubMed] [Google Scholar]
- Ding Yan-Huai R., Zhang Shi-Ping, Tomb Jean-Francois, Ferry James G. Genomic and proteomic analyses reveal multiple homologs of genes encoding enzymes of the methanol:coenzyme M methyltransferase system that are differentially expressed in methanol- and acetate-grown Methanosarcina thermophila. FEMS Microbiol Lett. 2002 Sep 24;215(1):127–132. doi: 10.1111/j.1574-6968.2002.tb11381.x. [DOI] [PubMed] [Google Scholar]
- Downes Alan M., Richardson Barry J. Relationships between genomic base content and distribution of mass in coded proteins. J Mol Evol. 2002 Oct;55(4):476–490. doi: 10.1007/s00239-002-2343-z. [DOI] [PubMed] [Google Scholar]
- Doytchinova Irini A., Blythe Martin J., Flower Darren R. Additive method for the prediction of protein-peptide binding affinity. Application to the MHC class I molecule HLA-A*0201. J Proteome Res. 2002 May-Jun;1(3):263–272. doi: 10.1021/pr015513z. [DOI] [PubMed] [Google Scholar]
- Duché Ophélie, Trémoulet Frédéric, Namane Abdelkader, Labadie Jean, European Listeria Genome Consortium A proteomic analysis of the salt stress response of Listeria monocytogenes. FEMS Microbiol Lett. 2002 Oct 8;215(2):183–188. doi: 10.1111/j.1574-6968.2002.tb11389.x. [DOI] [PubMed] [Google Scholar]
- Dullaghan Edith M., Malloff Chad A., Li Alice H., Lam Wan L., Stokes Richard W. Two-dimensional bacterial genome display: a method for the genomic analysis of mycobacteria. Microbiology. 2002 Oct;148(Pt 10):3111–3117. doi: 10.1099/00221287-148-10-3111. [DOI] [PubMed] [Google Scholar]
- Dunmire Valerie, Wu Chunlei, Symmans W. Fraser, Zhang Wei. Increased yield of total RNA from fine-needle aspirates for use in expression microarray analysis. Biotechniques. 2002 Oct;33(4):890-2, 894, 896. doi: 10.2144/02334mt02. [DOI] [PubMed] [Google Scholar]
- Dunn John J., McCorkle Sean R., Praissman Laura A., Hind Geoffrey, Van Der Lelie Daniel, Bahou Wadie F., Gnatenko Dmitri V., Krause Maureen K. Genomic signature tags (GSTs): a system for profiling genomic DNA. Genome Res. 2002 Nov;12(11):1756–1765. doi: 10.1101/gr.306102. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Eddes James S., Kapp Eugene A., Frecklington David F., Connolly Lisa M., Layton Meredith J., Moritz Robert L., Simpson Richard J. CHOMPER: a bioinformatic tool for rapid validation of tandem mass spectrometry search results associated with high-throughput proteomic strategies. Proteomics. 2002 Sep;2(9):1097–1103. doi: 10.1002/1615-9861(200209)2:9<1097::AID-PROT1097>3.0.CO;2-X. [DOI] [PubMed] [Google Scholar]
- Edwards Aled M., Kus Bart, Jansen Ronald, Greenbaum Dov, Greenblatt Jack, Gerstein Mark. Bridging structural biology and genomics: assessing protein interaction data with known complexes. Trends Genet. 2002 Oct;18(10):529–536. doi: 10.1016/s0168-9525(02)02763-4. [DOI] [PubMed] [Google Scholar]
- Eikmans Michael, Baelde Hans J., de Heer Emile, Bruijn Jan A. RNA expression profiling as prognostic tool in renal patients: toward nephrogenomics. Kidney Int. 2002 Oct;62(4):1125–1135. doi: 10.1111/j.1523-1755.2002.kid566.x. [DOI] [PubMed] [Google Scholar]
- El Atifi M., Dupré I., Rostaing B., Chambaz E. M., Benabid A. L., Berger F. Long oligonucleotide arrays on nylon for large-scale gene expression analysis. Biotechniques. 2002 Sep;33(3):612-6, 618. doi: 10.2144/02333rr04. [DOI] [PubMed] [Google Scholar]
- Famulok Michael, Verma Sandeep. In vivo-applied functional RNAs as tools in proteomics and genomics research. Trends Biotechnol. 2002 Nov;20(11):462–466. doi: 10.1016/s0167-7799(02)02063-2. [DOI] [PubMed] [Google Scholar]
- Farbrother Patrick, Müller Silke, Noegel Angelika A., Eichinger Ludwig. Comparison of probe preparation methods for DNA microarrays. Biotechniques. 2002 Oct;33(4):884–888. doi: 10.2144/02334mt01. [DOI] [PubMed] [Google Scholar]
- Fedorova Maria, van de Mortel Judith, Matsumoto Peter A., Cho Jennifer, Town Christopher D., VandenBosch Kathryn A., Gantt J. Stephen, Vance Carroll P. Genome-wide identification of nodule-specific transcripts in the model legume Medicago truncatula. Plant Physiol. 2002 Oct;130(2):519–537. doi: 10.1104/pp.006833. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Feldman A. L., Costouros N. G., Wang E., Qian M., Marincola F. M., Alexander H. R., Libutti S. K. Advantages of mRNA amplification for microarray analysis. Biotechniques. 2002 Oct;33(4):906-12, 914. doi: 10.2144/02334mt04. [DOI] [PubMed] [Google Scholar]
- Feng Qi, Zhang Yujun, Hao Pei, Wang Shengyue, Fu Gang, Huang Yucheng, Li Ying, Zhu Jingjie, Liu Yilei, Hu Xin. Sequence and analysis of rice chromosome 4. Nature. 2002 Nov 21;420(6913):316–320. doi: 10.1038/nature01183. [DOI] [PubMed] [Google Scholar]
- Flanagan Leanne M., Plowman Jeffrey E., Bryson Warren G. The high sulphur proteins of wool: Towards an understanding of sheep breed diversity. Proteomics. 2002 Sep;2(9):1240–1246. doi: 10.1002/1615-9861(200209)2:9<1240::AID-PROT1240>3.0.CO;2-#. [DOI] [PubMed] [Google Scholar]
- Flora Jason W., Null Allison P., Muddiman David C. Dual-micro-ESI source for precise mass determination on a quadrupole time-of-flight mass spectrometer for genomic and proteomic applications. Anal Bioanal Chem. 2002 Jun 25;373(7):538–546. doi: 10.1007/s00216-002-1357-0. [DOI] [PubMed] [Google Scholar]
- Forst Christian V. Network genomics--a novel approach for the analysis of biological systems in the post-genomic era. Mol Biol Rep. 2002 Sep;29(3):265–280. doi: 10.1023/a:1020437311167. [DOI] [PubMed] [Google Scholar]
- Francioso Francesca, Carinci Francesco, Tosi Lara, Scapoli Luca, Pezzetti Furio, Passerella Emanuele, Evangelisti Rita, Pastore Antonio, Pelucchi Stefano, Piattelli Adriano. Identification of differentially expressed genes in human salivary gland tumors by DNA microarrays. Mol Cancer Ther. 2002 May;1(7):533–538. [PubMed] [Google Scholar]
- Gavaghan C. L., Wilson I. D., Nicholson J. K. Physiological variation in metabolic phenotyping and functional genomic studies: use of orthogonal signal correction and PLS-DA. FEBS Lett. 2002 Oct 23;530(1-3):191–196. doi: 10.1016/s0014-5793(02)03476-2. [DOI] [PubMed] [Google Scholar]
- Geer Lewis Y., Domrachev Michael, Lipman David J., Bryant Stephen H. CDART: protein homology by domain architecture. Genome Res. 2002 Oct;12(10):1619–1623. doi: 10.1101/gr.278202. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Geoghegan Kieran F., Hoth Lise R., Tan Douglas H., Borzilleri Kris A., Withka Jane M., Boyd James G. Cyclization of N-terminal S-carbamoylmethylcysteine causing loss of 17 Da from peptides and extra peaks in peptide maps. J Proteome Res. 2002 Mar-Apr;1(2):181–187. doi: 10.1021/pr025503d. [DOI] [PubMed] [Google Scholar]
- Gibbons Francis D., Roth Frederick P. Judging the quality of gene expression-based clustering methods using gene annotation. Genome Res. 2002 Oct;12(10):1574–1581. doi: 10.1101/gr.397002. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Glaser Philippe, Rusniok Christophe, Buchrieser Carmen, Chevalier Fabien, Frangeul Lionel, Msadek Tarek, Zouine Mohamed, Couvé Elisabeth, Lalioui Lila, Poyart Claire. Genome sequence of Streptococcus agalactiae, a pathogen causing invasive neonatal disease. Mol Microbiol. 2002 Sep;45(6):1499–1513. doi: 10.1046/j.1365-2958.2002.03126.x. [DOI] [PubMed] [Google Scholar]
- Gough Julian. The SUPERFAMILY database in structural genomics. Acta Crystallogr D Biol Crystallogr. 2002 Oct 21;58(Pt 11):1897–1900. doi: 10.1107/s0907444902015160. [DOI] [PubMed] [Google Scholar]
- Gozal Evelyne, Gozal David, Pierce William M., Thongboonkerd Visith, Scherzer Janice A., Sachleben Leroy R., Jr, Brittian Kenneth R., Guo Shang-Z, Cai Jian, Klein Jon B. Proteomic analysis of CA1 and CA3 regions of rat hippocampus and differential susceptibility to intermittent hypoxia. J Neurochem. 2002 Oct;83(2):331–345. doi: 10.1046/j.1471-4159.2002.01134.x. [DOI] [PubMed] [Google Scholar]
- Gururaja Tarikere, Li Weiqun, Bernstein Jim, Payan Donald G., Anderson D. C. Use of MEDUSA-based data analysis and capillary HPLC-ion-trap mass spectrometry to examine complex immunoaffinity extracts of RBAp48. J Proteome Res. 2002 May-Jun;1(3):253–261. doi: 10.1021/pr0255147. [DOI] [PubMed] [Google Scholar]
- Guzzetta Andrew W., Thakur Rohan A., Mylchreest Iain C. A robust micro-electrospray ionization technique for high-throughput liquid chromatography/mass spectrometry proteomics using a sanded metal needle as an emitter. Rapid Commun Mass Spectrom. 2002;16(21):2067–2072. doi: 10.1002/rcm.829. [DOI] [PubMed] [Google Scholar]
- Hathout Yetrib, Riordan Kelly, Gehrmann Marion, Fenselau Catherine. Differential protein expression in the cytosol fraction of an MCF-7 breast cancer cell line selected for resistance toward melphalan. J Proteome Res. 2002 Sep-Oct;1(5):435–442. doi: 10.1021/pr020006i. [DOI] [PubMed] [Google Scholar]
- He Yan, Yeung Edward S. Rapid determination of protein molecular weight by the Ferguson method and multiplexed capillary electrophoresis. J Proteome Res. 2002 May-Jun;1(3):273–277. doi: 10.1021/pr025507i. [DOI] [PubMed] [Google Scholar]
- Hekmat-Scafe Daria S., Scafe Charles R., McKinney Aimee J., Tanouye Mark A. Genome-wide analysis of the odorant-binding protein gene family in Drosophila melanogaster. Genome Res. 2002 Sep;12(9):1357–1369. doi: 10.1101/gr.239402. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hemmilä Ilkka A., Hurskainen Pertti. Novel detection strategies for drug discovery. Drug Discov Today. 2002 Sep 15;7(18 Suppl):S150–S156. doi: 10.1016/s1359-6446(02)02390-5. [DOI] [PubMed] [Google Scholar]
- Herrero Javier, Dopazo Joaquín. Combining hierarchical clustering and self-organizing maps for exploratory analysis of gene expression patterns. J Proteome Res. 2002 Sep-Oct;1(5):467–470. doi: 10.1021/pr025521v. [DOI] [PubMed] [Google Scholar]
- Hixson Kim K., Rodriguez Nestor, Camp David G., 2nd, Strittmatter Eric F., Lipton Mary S., Smith Richard D. Evaluation of enzymatic digestion and liquid chromatography-mass spectrometry peptide mapping of the integral membrane protein bacteriorhodopsin. Electrophoresis. 2002 Sep;23(18):3224–3232. doi: 10.1002/1522-2683(200209)23:18<3224::AID-ELPS3224>3.0.CO;2-#. [DOI] [PubMed] [Google Scholar]
- Howe Kevin L., Chothia Tom, Durbin Richard. GAZE: a generic framework for the integration of gene-prediction data by dynamic programming. Genome Res. 2002 Sep;12(9):1418–1427. doi: 10.1101/gr.149502. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hu Shen, Jiang Jiang, Cook Lillian M., Richards Dawn P., Horlick Laura, Wong Brandon, Dovichi Norman J. Capillary sodium dodecyl sulfate-DALT electrophoresis with laser-induced fluorescence detection for size-based analysis of proteins in human colon cancer cells. Electrophoresis. 2002 Sep;23(18):3136–3142. doi: 10.1002/1522-2683(200209)23:18<3136::AID-ELPS3136>3.0.CO;2-S. [DOI] [PubMed] [Google Scholar]
- Huang Ya-Hui, Chang Alice Y. W., Huang Chun-Ming, Huang Shiow-Wen, Chan Samuel H. H. Proteomic analysis of lipopolysaccharide-induced apoptosis in PC12 cells. Proteomics. 2002 Sep;2(9):1220–1228. doi: 10.1002/1615-9861(200209)2:9<1220::AID-PROT1220>3.0.CO;2-3. [DOI] [PubMed] [Google Scholar]
- Hubbard Michael J. Functional proteomics: The goalposts are moving. Proteomics. 2002 Sep;2(9):1069–1078. doi: 10.1002/1615-9861(200209)2:9<1069::AID-PROT1069>3.0.CO;2-R. [DOI] [PubMed] [Google Scholar]
- Huels Christoph, Muellner Stefan, Meyer Helmut E., Cahill Dolores J. The impact of protein biochips and microarrays on the drug development process. Drug Discov Today. 2002 Sep 15;7(18 Suppl):S119–S124. doi: 10.1016/s1359-6446(02)02389-9. [DOI] [PubMed] [Google Scholar]
- Ilag Leodevico L., Ng Jocelyn H., Beste Gerald, Henning Stefan W. Emerging high-throughput drug target validation technologies. Drug Discov Today. 2002 Sep 15;7(18 Suppl):S136–S142. doi: 10.1016/s1359-6446(02)02429-7. [DOI] [PubMed] [Google Scholar]
- Inoue A., Yoshida N., Omoto Y., Oguchi S., Yamori T., Kiyama R., Hayashi S. Development of cDNA microarray for expression profiling of estrogen-responsive genes. J Mol Endocrinol. 2002 Oct;29(2):175–192. doi: 10.1677/jme.0.0290175. [DOI] [PubMed] [Google Scholar]
- Issac Biju, Raghava G. P. S. GWFASTA: server for FASTA search in eukaryotic and microbial genomes. Biotechniques. 2002 Sep;33(3):548-50, 552, 554-6. doi: 10.2144/02333st05. [DOI] [PubMed] [Google Scholar]
- Ivanova A. V., Ivanov S. V. Differential display analysis of gene expression in yeast. Cell Mol Life Sci. 2002 Aug;59(8):1241–1245. doi: 10.1007/s00018-002-8502-y. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Jarvik J. W., Fisher G. W., Shi C., Hennen L., Hauser C., Adler S., Berget P. B. In vivo functional proteomics: mammalian genome annotation using CD-tagging. Biotechniques. 2002 Oct;33(4):852-4, 856, 858-60 passim. doi: 10.2144/02334rr02. [DOI] [PubMed] [Google Scholar]
- Jiang Heng, English Ann M. Quantitative analysis of the yeast proteome by incorporation of isotopically labeled leucine. J Proteome Res. 2002 Jul-Aug;1(4):345–350. doi: 10.1021/pr025523f. [DOI] [PubMed] [Google Scholar]
- Jin Qi, Yuan Zhenghong, Xu Jianguo, Wang Yu, Shen Yan, Lu Weichuan, Wang Jinhua, Liu Hong, Yang Jian, Yang Fan. Genome sequence of Shigella flexneri 2a: insights into pathogenicity through comparison with genomes of Escherichia coli K12 and O157. Nucleic Acids Res. 2002 Oct 15;30(20):4432–4441. doi: 10.1093/nar/gkf566. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Johnson Jeffrey R., Meng Fanyu, Forbes Andrew J., Cargile Benjamin J., Kelleher Neil L. Fourier-transform mass spectrometry for automated fragmentation and identification of 5-20 kDa proteins in mixtures. Electrophoresis. 2002 Sep;23(18):3217–3223. doi: 10.1002/1522-2683(200209)23:18<3217::AID-ELPS3217>3.0.CO;2-K. [DOI] [PubMed] [Google Scholar]
- Kaderali Lars, Schliep Alexander. Selecting signature oligonucleotides to identify organisms using DNA arrays. Bioinformatics. 2002 Oct;18(10):1340–1349. doi: 10.1093/bioinformatics/18.10.1340. [DOI] [PubMed] [Google Scholar]
- Kallberg Yvonne, Oppermann Udo, Jörnvall Hans, Persson Bengt. Short-chain dehydrogenases/reductases (SDRs). Eur J Biochem. 2002 Sep;269(18):4409–4417. doi: 10.1046/j.1432-1033.2002.03130.x. [DOI] [PubMed] [Google Scholar]
- Karty Jonathan A., Ireland Marcia M. E., Brun Yves V., Reilly James P. Defining absolute confidence limits in the identification of Caulobacter proteins by peptide mass mapping. J Proteome Res. 2002 Jul-Aug;1(4):325–335. doi: 10.1021/pr025518b. [DOI] [PubMed] [Google Scholar]
- Kasif Simon, Weng Zhiping, Derti Adnan, Beigel Richard, DeLisi Charles. A computational framework for optimal masking in the synthesis of oligonucleotide microarrays. Nucleic Acids Res. 2002 Oct 15;30(20):e106–e106. doi: 10.1093/nar/gnf105. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Katsanis Nicholas, Worley Kim C., Gonzalez Guillermo, Ansley Stephen J., Lupski James R. A computational/functional genomics approach for the enrichment of the retinal transcriptome and the identification of positional candidate retinopathy genes. Proc Natl Acad Sci U S A. 2002 Oct 21;99(22):14326–14331. doi: 10.1073/pnas.222409099. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kell Douglas B. Metabolomics and machine learning: explanatory analysis of complex metabolome data using genetic programming to produce simple, robust rules. Mol Biol Rep. 2002;29(1-2):237–241. doi: 10.1023/a:1020342216314. [DOI] [PubMed] [Google Scholar]
- Kim H., Zhao B., Snesrud E. C., Haas B. J., Town C. D., Quackenbush J. Use of RNA and genomic DNA references for inferred comparisons in DNA microarray analyses. Biotechniques. 2002 Oct;33(4):924–930. doi: 10.2144/02334mt06. [DOI] [PubMed] [Google Scholar]
- Klok Erik Jan, Wilson Iain W., Wilson Dale, Chapman Scott C., Ewing Rob M., Somerville Shauna C., Peacock W. James, Dolferus Rudy, Dennis Elizabeth S. Expression profile analysis of the low-oxygen response in Arabidopsis root cultures. Plant Cell. 2002 Oct;14(10):2481–2494. doi: 10.1105/tpc.004747. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Klysik Jan. Mice and humans: chromosome engineering and its application to functional genomics. Acta Biochim Pol. 2002;49(3):553–569. [PubMed] [Google Scholar]
- Ko Young-Gyu, Park Heonyong, Kim Sunghoon. Novel regulatory interactions and activities of mammalian tRNA synthetases. Proteomics. 2002 Sep;2(9):1304–1310. doi: 10.1002/1615-9861(200209)2:9<1304::AID-PROT1304>3.0.CO;2-E. [DOI] [PubMed] [Google Scholar]
- Kohlmann A., Schoch C., Schnittger S., Kern W., Haferlach T. Neue Methode zur Diagnostik von Leukämien: DNA-Microarrays. Dtsch Med Wochenschr. 2002 Oct 18;127(42):2216–2222. doi: 10.1055/s-2002-34945. [DOI] [PubMed] [Google Scholar]
- Koonin Eugene V., Wolf Yuri I., Karev Georgy P. The structure of the protein universe and genome evolution. Nature. 2002 Nov 14;420(6912):218–223. doi: 10.1038/nature01256. [DOI] [PubMed] [Google Scholar]
- Korencić Dragana, Söll Dieter, Ambrogelly Alexandre. A one-step method for in vitro production of tRNA transcripts. Nucleic Acids Res. 2002 Oct 15;30(20):e105–e105. doi: 10.1093/nar/gnf104. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Korolainen Minna A., Goldsteins Gundars, Alafuzoff Irina, Koistinaho Jari, Pirttilä Tuula. Proteomic analysis of protein oxidation in Alzheimer's disease brain. Electrophoresis. 2002 Sep;23(19):3428–3433. doi: 10.1002/1522-2683(200210)23:19<3428::AID-ELPS3428>3.0.CO;2-5. [DOI] [PubMed] [Google Scholar]
- Krasnova Irina N., McCoy Michael T., Ladenheim Bruce, Cadet Jean Lud. cDNA array analysis of gene expression profiles in the striata of wild-type and Cu/Zn superoxide dismutase transgenic mice treated with neurotoxic doses of amphetamine. FASEB J. 2002 Sep;16(11):1379–1388. doi: 10.1096/fj.01-0796com. [DOI] [PubMed] [Google Scholar]
- Krogan Nevan J., Kim Minkyu, Ahn Seong Hoon, Zhong Guoqing, Kobor Michael S., Cagney Gerard, Emili Andrew, Shilatifard Ali, Buratowski Stephen, Greenblatt Jack F. RNA polymerase II elongation factors of Saccharomyces cerevisiae: a targeted proteomics approach. Mol Cell Biol. 2002 Oct;22(20):6979–6992. doi: 10.1128/MCB.22.20.6979-6992.2002. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kuipers Oscar P., de Jong Anne, Baerends Richard J. S., van Hijum Sacha A. F. T., Zomer Aldert L., Karsens Harma A., den Hengst Chris D., Kramer Naomi E., Buist Girbe, Kok Jan. Transcriptome analysis and related databases of Lactococcus lactis. Antonie Van Leeuwenhoek. 2002 Aug;82(1-4):113–122. [PubMed] [Google Scholar]
- Kuo Winston Patrick, Whipple Mark E., Sonis Stephen T., Ohno-Machado Lucila, Jenssen Tor-Kristian. Gene expression profiling by DNA microarrays and its application to dental research. Oral Oncol. 2002 Oct;38(7):650–656. doi: 10.1016/s1368-8375(02)00013-1. [DOI] [PubMed] [Google Scholar]
- Kwanyuen Prachuab, Allina Sandra M., Weissinger Arthur K., Wilson Richard F. A new form of crystalline rubisco and the conversion to its common dodecahedral form. J Proteome Res. 2002 Sep-Oct;1(5):471–473. doi: 10.1021/pr025548e. [DOI] [PubMed] [Google Scholar]
- Lal Sean P., Christopherson Richard I., dos Remedios Cristobal G. Antibody arrays: an embryonic but rapidly growing technology. Drug Discov Today. 2002 Sep 15;7(18 Suppl):S143–S149. doi: 10.1016/s1359-6446(02)02413-3. [DOI] [PubMed] [Google Scholar]
- Larsen Christopher N., Wang Hailin. The ubiquitin superfamily: members, features, and phylogenies. J Proteome Res. 2002 Sep-Oct;1(5):411–419. doi: 10.1021/pr025522n. [DOI] [PubMed] [Google Scholar]
- Larsen Martin R., Cordwell Stuart J., Roepstorff Peter. Graphite powder as an alternative or supplement to reversed-phase material for desalting and concentration of peptide mixtures prior to matrix-assisted laser desorption/ionization-mass spectrometry. Proteomics. 2002 Sep;2(9):1277–1287. doi: 10.1002/1615-9861(200209)2:9<1277::AID-PROT1277>3.0.CO;2-P. [DOI] [PubMed] [Google Scholar]
- Le Roch Karine G., Zhou Yingyao, Batalov Sergei, Winzeler Elizabeth A. Monitoring the chromosome 2 intraerythrocytic transcriptome of Plasmodium falciparum using oligonucleotide arrays. Am J Trop Med Hyg. 2002 Sep;67(3):233–243. doi: 10.4269/ajtmh.2002.67.233. [DOI] [PubMed] [Google Scholar]
- Lee Cheol-Koo, Allison David B., Brand Jaap, Weindruch Richard, Prolla Tomas A. Transcriptional profiles associated with aging and middle age-onset caloric restriction in mouse hearts. Proc Natl Acad Sci U S A. 2002 Nov 5;99(23):14988–14993. doi: 10.1073/pnas.232308999. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lee Seongeun, Baek Myungin, Yang Hankwang, Bang Yung-Jue, Kim Woo Ho, Ha Ji-Hong, Kim Dae-Kee, Jeoung Doo-Il. Identification of genes differentially expressed between gastric cancers and normal gastric mucosa with cDNA microarrays. Cancer Lett. 2002 Oct 28;184(2):197–206. doi: 10.1016/s0304-3835(02)00197-0. [DOI] [PubMed] [Google Scholar]
- Li Jiang, Pankratz Matthew, Johnson Jeffrey A. Differential gene expression patterns revealed by oligonucleotide versus long cDNA arrays. Toxicol Sci. 2002 Oct;69(2):383–390. doi: 10.1093/toxsci/69.2.383. [DOI] [PubMed] [Google Scholar]
- Li Yi, Campbell Colin, Tipping Michael. Bayesian automatic relevance determination algorithms for classifying gene expression data. Bioinformatics. 2002 Oct;18(10):1332–1339. doi: 10.1093/bioinformatics/18.10.1332. [DOI] [PubMed] [Google Scholar]
- Lian Zheng, Kluger Yuval, Greenbaum Dov S., Tuck David, Gerstein Mark, Berliner Nancy, Weissman Sherman M., Newburger Peter E. Genomic and proteomic analysis of the myeloid differentiation program: global analysis of gene expression during induced differentiation in the MPRO cell line. Blood. 2002 Nov 1;100(9):3209–3220. doi: 10.1182/blood-2002-03-0850. [DOI] [PubMed] [Google Scholar]
- Liao V. H. C., Freedman J. H. Differential display analysis of gene expression in invertebrates. Cell Mol Life Sci. 2002 Aug;59(8):1256–1263. doi: 10.1007/s00018-002-8504-9. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lim Justin Wee Eng, Bodnar Andrea. Proteome analysis of conditioned medium from mouse embryonic fibroblast feeder layers which support the growth of human embryonic stem cells. Proteomics. 2002 Sep;2(9):1187–1203. doi: 10.1002/1615-9861(200209)2:9<1187::AID-PROT1187>3.0.CO;2-T. [DOI] [PubMed] [Google Scholar]
- Lin J., Qian J., Greenbaum D., Bertone P., Das R., Echols N., Senes A., Stenger B., Gerstein M. GeneCensus: genome comparisons in terms of metabolic pathway activity and protein family sharing. Nucleic Acids Res. 2002 Oct 15;30(20):4574–4582. doi: 10.1093/nar/gkf555. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lin Jizhen, Tsuboi Yasuhiro, Pan Wei, Giebink G. Scott, Adams George L., Kim Youngki. Analysis by cDNA microarrays of altered gene expression in middle ears of rats following pneumococcal infection. Int J Pediatr Otorhinolaryngol. 2002 Sep 24;65(3):203–211. doi: 10.1016/s0165-5876(02)00130-1. [DOI] [PubMed] [Google Scholar]
- Lind Christina, Gerdes Robert, Hamnell Ylva, Schuppe-Koistinen Ina, von Löwenhielm Helena Brockenhuus, Holmgren Arne, Cotgreave Ian A. Identification of S-glutathionylated cellular proteins during oxidative stress and constitutive metabolism by affinity purification and proteomic analysis. Arch Biochem Biophys. 2002 Oct 15;406(2):229–240. doi: 10.1016/s0003-9861(02)00468-x. [DOI] [PubMed] [Google Scholar]
- Ling Lunjiang, Wang Jinhua, Cui Yan, Li Wei, Chen Runsheng. Proteome-wide analysis of protein function composition reveals the clustering and phylogenetic properties of organisms. Mol Phylogenet Evol. 2002 Oct;25(1):101–111. doi: 10.1016/s1055-7903(02)00354-8. [DOI] [PubMed] [Google Scholar]
- Liu Aiyi, Zhang Ying, Gehan Edmund, Clarke Robert. Block principal component analysis with application to gene microarray data classification. Stat Med. 2002 Nov 30;21(22):3465–3474. doi: 10.1002/sim.1263. [DOI] [PubMed] [Google Scholar]
- Liu Peiran, Regnier Fred E. An isotope coding strategy for proteomics involving both amine and carboxyl group labeling. J Proteome Res. 2002 Sep-Oct;1(5):443–450. doi: 10.1021/pr0255304. [DOI] [PubMed] [Google Scholar]
- Liu Shi V., Saunders Nigel J., Jeffries Alex, Rest Richard F. Genome analysis and strain comparison of correia repeats and correia repeat-enclosed elements in pathogenic Neisseria. J Bacteriol. 2002 Nov;184(22):6163–6173. doi: 10.1128/JB.184.22.6163-6173.2002. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Locke Vicki L., Gibson Toby S., Thomas Theresa M., Corthals Garry L., Rylatt Dennis B. Gradiflow as a prefractionation tool for two-dimensional electrophoresis. Proteomics. 2002 Sep;2(9):1254–1260. doi: 10.1002/1615-9861(200209)2:9<1254::AID-PROT1254>3.0.CO;2-A. [DOI] [PubMed] [Google Scholar]
- Low Teck Yew, Seow Teck Keong, Chung Maxey C. M. Separation of human erythrocyte membrane associated proteins with one-dimensional and two-dimensional gel electrophoresis followed by identification with matrix-assisted laser desorption/ionization-time of flight mass spectrometry. Proteomics. 2002 Sep;2(9):1229–1239. doi: 10.1002/1615-9861(200209)2:9<1229::AID-PROT1229>3.0.CO;2-N. [DOI] [PubMed] [Google Scholar]
- Lum John Hon-Kei, Fung Ka-Lee, Cheung Pik-Yuen, Wong Man-Sau, Lee Chi-Ho, Kwok Francis Shui-Lai, Leung Mason Chin-Pang, Hui Pak-Kwan, Lo Samuel Chun-Lap. Proteome of Oriental ginseng Panax ginseng C. A. Meyer and the potential to use it as an identification tool. Proteomics. 2002 Sep;2(9):1123–1130. doi: 10.1002/1615-9861(200209)2:9<1123::AID-PROT1123>3.0.CO;2-S. [DOI] [PubMed] [Google Scholar]
- Lund James, Tedesco Patricia, Duke Kyle, Wang John, Kim Stuart K., Johnson Thomas E. Transcriptional profile of aging in C. elegans. Curr Biol. 2002 Sep 17;12(18):1566–1573. doi: 10.1016/s0960-9822(02)01146-6. [DOI] [PubMed] [Google Scholar]
- Malmström Lars, Malmström Johan, Marko-Varga György, Westergren-Thorsson Gunilla. Proteomic 2DE database for spot selection, automated annotation, and data analysis. J Proteome Res. 2002 Mar-Apr;1(2):135–138. doi: 10.1021/pr010004i. [DOI] [PubMed] [Google Scholar]
- Martin William, Rujan Tamas, Richly Erik, Hansen Andrea, Cornelsen Sabine, Lins Thomas, Leister Dario, Stoebe Bettina, Hasegawa Masami, Penny David. Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus. Proc Natl Acad Sci U S A. 2002 Sep 6;99(19):12246–12251. doi: 10.1073/pnas.182432999. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Marvanová M., Törönen P., Storvik M., Lakso M., Castrén E., Wong G. Synexpression analysis of ESTs in the rat brain reveals distinct patterns and potential drug targets. Brain Res Mol Brain Res. 2002 Aug 15;104(2):176–183. doi: 10.1016/s0169-328x(02)00356-x. [DOI] [PubMed] [Google Scholar]
- Mateos Alvaro, Dopazo Joaquín, Jansen Ronald, Tu Yuhai, Gerstein Mark, Stolovitzky Gustavo. Systematic learning of gene functional classes from DNA array expression data by using multilayer perceptrons. Genome Res. 2002 Nov;12(11):1703–1715. doi: 10.1101/gr.192502. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Mathesius Ulrike, Imin Nijat, Chen Hancai, Djordjevic Michael A., Weinman Jeremy J., Natera Siria H. A., Morris Angela C., Kerim Tursun, Paul Susan, Menzel Christian. Evaluation of proteome reference maps for cross-species identification of proteins by peptide mass fingerprinting. Proteomics. 2002 Sep;2(9):1288–1303. doi: 10.1002/1615-9861(200209)2:9<1288::AID-PROT1288>3.0.CO;2-H. [DOI] [PubMed] [Google Scholar]
- Melin P., Schnürer J., Wagner E. G. H. Proteome analysis of Aspergillus nidulans reveals proteins associated with the response to the antibiotic concanamycin A, produced by Streptomyces species. Mol Genet Genomics. 2002 Jul 4;267(6):695–702. doi: 10.1007/s00438-002-0695-0. [DOI] [PubMed] [Google Scholar]
- Menges Margit, Hennig Lars, Gruissem Wilhelm, Murray James A. H. Cell cycle-regulated gene expression in Arabidopsis. J Biol Chem. 2002 Aug 6;277(44):41987–42002. doi: 10.1074/jbc.M207570200. [DOI] [PubMed] [Google Scholar]
- Michener Chad M., Ardekani Ali M., Petricoin Emmanuel F., 3rd, Liotta Lance A., Kohn Elise C. Genomics and proteomics: application of novel technology to early detection and prevention of cancer. Cancer Detect Prev. 2002;26(4):249–255. doi: 10.1016/s0361-090x(02)00092-2. [DOI] [PubMed] [Google Scholar]
- Michiels Frits, van Es Helmuth, van Rompaey Luc, Merchiers Pascal, Francken Bart, Pittois Karen, van der Schueren Jan, Brys Reginald, Vandersmissen Johan, Beirinckx Filip. Arrayed adenoviral expression libraries for functional screening. Nat Biotechnol. 2002 Sep 30;20(11):1154–1157. doi: 10.1038/nbt746. [DOI] [PubMed] [Google Scholar]
- Mira Alex, Klasson Lisa, Andersson Siv G. E. Microbial genome evolution: sources of variability. Curr Opin Microbiol. 2002 Oct;5(5):506–512. doi: 10.1016/s1369-5274(02)00358-2. [DOI] [PubMed] [Google Scholar]
- Mo Wenjun, Karger Barry L. Analytical aspects of mass spectrometry and proteomics. Curr Opin Chem Biol. 2002 Oct;6(5):666–675. doi: 10.1016/s1367-5931(02)00379-4. [DOI] [PubMed] [Google Scholar]
- Mohan Deepa, Lee Cheng S. On-line coupling of capillary isoelectric focusing with transient isotachophoresis-zone electrophoresis: a two-dimensional separation system for proteomics. Electrophoresis. 2002 Sep;23(18):3160–3167. doi: 10.1002/1522-2683(200209)23:18<3160::AID-ELPS3160>3.0.CO;2-L. [DOI] [PubMed] [Google Scholar]
- Moore Shanna, Vrebalov Julia, Payton Paxton, Giovannoni Jim. Use of genomics tools to isolate key ripening genes and analyse fruit maturation in tomato. J Exp Bot. 2002 Oct;53(377):2023–2030. doi: 10.1093/jxb/erf057. [DOI] [PubMed] [Google Scholar]
- Morgan Kevin T., Ni Hong, Brown H. Roger, Yoon Lawrence, Qualls Charles W., Jr, Crosby Lynn M., Reynolds Randall, Gaskill Betty, Anderson Steven P., Kepler Thomas B. Application of cDNA microarray technology to in vitro toxicology and the selection of genes for a real-time RT-PCR-based screen for oxidative stress in Hep-G2 cells. Toxicol Pathol. 2002 Jul-Aug;30(4):435–451. doi: 10.1080/01926230290105613. [DOI] [PubMed] [Google Scholar]
- Moseyko Nick, Zhu Tong, Chang Hur-Song, Wang Xun, Feldman Lewis J. Transcription profiling of the early gravitropic response in Arabidopsis using high-density oligonucleotide probe microarrays. Plant Physiol. 2002 Oct;130(2):720–728. doi: 10.1104/pp.009688. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Nagayama Satoshi, Katagiri Toyomasa, Tsunoda Tatsuhiko, Hosaka Taisuke, Nakashima Yasuaki, Araki Nobuhito, Kusuzaki Katsuyuki, Nakayama Tomitaka, Tsuboyama Tadao, Nakamura Takashi. Genome-wide analysis of gene expression in synovial sarcomas using a cDNA microarray. Cancer Res. 2002 Oct 15;62(20):5859–5866. [PubMed] [Google Scholar]
- Nakamura Yasukazu, Kaneko Takakazu, Sato Shusei, Ikeuchi Masahiko, Katoh Hiroshi, Sasamoto Shigemi, Watanabe Akiko, Iriguchi Mayumi, Kawashima Kumiko, Kimura Takaharu. Complete genome structure of the thermophilic cyanobacterium Thermosynechococcus elongatus BP-1. DNA Res. 2002 Aug 31;9(4):123–130. doi: 10.1093/dnares/9.4.123. [DOI] [PubMed] [Google Scholar]
- Nakayama Manabu, Kikuno Reiko, Ohara Osamu. Protein-protein interactions between large proteins: two-hybrid screening using a functionally classified library composed of long cDNAs. Genome Res. 2002 Nov;12(11):1773–1784. doi: 10.1101/gr.406902. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Nantel André, Dignard Daniel, Bachewich Catherine, Harcus Doreen, Marcil Anne, Bouin Anne-Pascale, Sensen Christoph W., Hogues Hervé, van het Hoog Marco, Gordon Paul. Transcription profiling of Candida albicans cells undergoing the yeast-to-hyphal transition. Mol Biol Cell. 2002 Oct;13(10):3452–3465. doi: 10.1091/mbc.E02-05-0272. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Natsume Tohru, Taoka Masato, Manki Hiroshi, Kume Shouen, Isobe Toshiaki, Mikoshiba Katsuhiko. Rapid analysis of protein interactions: On-chip micropurification of recombinant protein expressed in Esherichia coli. Proteomics. 2002 Sep;2(9):1247–1253. doi: 10.1002/1615-9861(200209)2:9<1247::AID-PROT1247>3.0.CO;2-V. [DOI] [PubMed] [Google Scholar]
- Natsume Tohru, Yamauchi Yoshio, Nakayama Hiroshi, Shinkawa Takashi, Yanagida Mitsuaki, Takahashi Nobuhiro, Isobe Toshiaki. A direct nanoflow liquid chromatography-tandem mass spectrometry system for interaction proteomics. Anal Chem. 2002 Sep 15;74(18):4725–4733. doi: 10.1021/ac020018n. [DOI] [PubMed] [Google Scholar]
- Navas A., López J. A., Espárrago G., Camafeita E., Albar J. P. Protein variability in Meloidogyne spp. (Nematoda:Meloidogynidae) revealed by two-dimensional gel electrophoresis and mass spectrometry. J Proteome Res. 2002 Sep-Oct;1(5):421–427. doi: 10.1021/pr0255194. [DOI] [PubMed] [Google Scholar]
- Nebl Thomas, Pestonjamasp Kersi N., Leszyk John D., Crowley Jessica L., Oh Sang W., Luna Elizabeth J. Proteomic analysis of a detergent-resistant membrane skeleton from neutrophil plasma membranes. J Biol Chem. 2002 Aug 28;277(45):43399–43409. doi: 10.1074/jbc.M205386200. [DOI] [PubMed] [Google Scholar]
- Neusüss Christian, Pelzing Matthias, Macht Marcus. A robust approach for the analysis of peptides in the low femtomole range by capillary electrophoresis-tandem mass spectrometry. Electrophoresis. 2002 Sep;23(18):3149–3159. doi: 10.1002/1522-2683(200209)23:18<3149::AID-ELPS3149>3.0.CO;2-8. [DOI] [PubMed] [Google Scholar]
- Nicholson Jeremy K., Connelly John, Lindon John C., Holmes Elaine. Metabonomics: a platform for studying drug toxicity and gene function. Nat Rev Drug Discov. 2002 Feb;1(2):153–161. doi: 10.1038/nrd728. [DOI] [PubMed] [Google Scholar]
- Nielsen Jens, Olsson Lisbeth. An expanded role for microbial physiology in metabolic engineering and functional genomics: moving towards systems biology. FEMS Yeast Res. 2002 May;2(2):175–181. doi: 10.1111/j.1567-1364.2002.tb00083.x. [DOI] [PubMed] [Google Scholar]
- Nouwens Amanda S., Willcox Mark D. P., Walsh Bradley J., Cordwell Stuart J. Proteomic comparison of membrane and extracellular proteins from invasive (PAO1) and cytotoxic (6206) strains of Pseudomonas aeruginosa. Proteomics. 2002 Sep;2(9):1325–1346. doi: 10.1002/1615-9861(200209)2:9<1325::AID-PROT1325>3.0.CO;2-4. [DOI] [PubMed] [Google Scholar]
- Nuwaysir Emile F., Huang Wei, Albert Thomas J., Singh Jaz, Nuwaysir Kate, Pitas Alan, Richmond Todd, Gorski Tom, Berg James P., Ballin Jeff. Gene expression analysis using oligonucleotide arrays produced by maskless photolithography. Genome Res. 2002 Nov;12(11):1749–1755. doi: 10.1101/gr.362402. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Okutsu Jun-ichi, Tsunoda Tatsuhiko, Kaneta Yasuyuki, Katagiri Toyomasa, Kitahara Osamu, Zembutsu Hitoshi, Yanagawa Rempei, Miyawaki Shuichi, Kuriyama Kazutaka, Kubota Nobuyuki. Prediction of chemosensitivity for patients with acute myeloid leukemia, according to expression levels of 28 genes selected by genome-wide complementary DNA microarray analysis. Mol Cancer Ther. 2002 Oct;1(12):1035–1042. [PubMed] [Google Scholar]
- Ortega Dominique, Raynal Monique, Laudié Michèle, Llauro Christel, Cooke Richard, Devic Martine, Genestier Simone, Picard Georges, Abad Pierre, Contard Pascale. Flanking sequence tags in Arabidopsis thaliana T-DNA insertion lines: a pilot study. C R Biol. 2002 Jul;325(7):773–780. doi: 10.1016/s1631-0691(02)01490-7. [DOI] [PubMed] [Google Scholar]
- Oshima Taku, Aiba Hirofumi, Masuda Yasushi, Kanaya Shigehiko, Sugiura Masahito, Wanner Barry L., Mori Hirotada, Mizuno Takeshi. Transcriptome analysis of all two-component regulatory system mutants of Escherichia coli K-12. Mol Microbiol. 2002 Oct;46(1):281–291. doi: 10.1046/j.1365-2958.2002.03170.x. [DOI] [PubMed] [Google Scholar]
- Pang James X., Ginanni Nicole, Dongre Ashok R., Hefta Stanley A., Opitek Gregory J. Biomarker discovery in urine by proteomics. J Proteome Res. 2002 Mar-Apr;1(2):161–169. doi: 10.1021/pr015518w. [DOI] [PubMed] [Google Scholar]
- Pasa-Tolić Ljiljana, Harkewicz Richard, Anderson Gordon A., Tolić Nikola, Shen Yufeng, Zhao Rui, Thrall Brian, Masselon Christophe, Smith Richard D. Increased proteome coverage for quantitative peptide abundance measurements based upon high performance separations and DREAMS FTICR mass spectrometry. J Am Soc Mass Spectrom. 2002 Aug;13(8):954–963. doi: 10.1016/S1044-0305(02)00409-9. [DOI] [PubMed] [Google Scholar]
- Paulsen Ian T., Seshadri Rekha, Nelson Karen E., Eisen Jonathan A., Heidelberg John F., Read Timothy D., Dodson Robert J., Umayam Lowell, Brinkac Lauren M., Beanan Maureen J. The Brucella suis genome reveals fundamental similarities between animal and plant pathogens and symbionts. Proc Natl Acad Sci U S A. 2002 Sep 23;99(20):13148–13153. doi: 10.1073/pnas.192319099. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Pavlickova Petra, Jensen Nina Mejlhede, Paul Hubert, Schaeferling Michael, Giammasi Chiara, Kruschina Margit, Du Wei-Dong, Theisen Michael, Ibba Michael, Ortigao Flavio. Antibody detection in human serum using a versatile protein chip platform constructed by applying nanoscale self-assembled architectures on gold. J Proteome Res. 2002 May-Jun;1(3):227–231. doi: 10.1021/pr0200036. [DOI] [PubMed] [Google Scholar]
- Peterson Leif E. Factor analysis of cluster-specific gene expression levels from cDNA microarrays. Comput Methods Programs Biomed. 2002 Nov;69(3):179–188. doi: 10.1016/s0169-2607(01)00189-4. [DOI] [PubMed] [Google Scholar]
- Petricoin Emanuel F., 3rd, Ornstein David K., Paweletz Cloud P., Ardekani Ali, Hackett Paul S., Hitt Ben A., Velassco Alfredo, Trucco Christian, Wiegand Laura, Wood Kamillah. Serum proteomic patterns for detection of prostate cancer. J Natl Cancer Inst. 2002 Oct 16;94(20):1576–1578. doi: 10.1093/jnci/94.20.1576. [DOI] [PubMed] [Google Scholar]
- Petricoin Emanuel F., Zoon Kathryn C., Kohn Elise C., Barrett J. Carl, Liotta Lance A. Clinical proteomics: translating benchside promise into bedside reality. Nat Rev Drug Discov. 2002 Sep;1(9):683–695. doi: 10.1038/nrd891. [DOI] [PubMed] [Google Scholar]
- Piper Matthew D. W., Daran-Lapujade Pascale, Bro Christoffer, Regenberg Birgitte, Knudsen Steen, Nielsen Jens, Pronk Jack T. Reproducibility of oligonucleotide microarray transcriptome analyses. An interlaboratory comparison using chemostat cultures of Saccharomyces cerevisiae. J Biol Chem. 2002 Jul 16;277(40):37001–37008. doi: 10.1074/jbc.M204490200. [DOI] [PubMed] [Google Scholar]
- Pramanik Birendra N., Mirza Urooj A., Ing Yao Hain, Liu Yan-Hui, Bartner Peter L., Weber Patricia C., Bose Ajay K. Microwave-enhanced enzyme reaction for protein mapping by mass spectrometry: a new approach to protein digestion in minutes. Protein Sci. 2002 Nov;11(11):2676–2687. doi: 10.1110/ps.0213702. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Prasan Ananth M., McCarron Hugh C. K., White Melanie Y., McLennan Susan V., Tchen Adrian S., Hambly Brett D., Jeremy Richmond W. Duration of ischaemia determines matrix metalloproteinase-2 activation in the reperfused rabbit heart. Proteomics. 2002 Sep;2(9):1204–1210. doi: 10.1002/1615-9861(200209)2:9<1204::AID-PROT1204>3.0.CO;2-K. [DOI] [PubMed] [Google Scholar]
- Puskás L. G., Zvara A., Hackler L., Jr, Micsik T., van Hummelen P. Production of bulk amounts of universal RNA for DNA microarrays. Biotechniques. 2002 Oct;33(4):898-900, 902, 904. doi: 10.2144/02334mt03. [DOI] [PubMed] [Google Scholar]
- Pybus O. G., Rambaut A. GENIE: estimating demographic history from molecular phylogenies. Bioinformatics. 2002 Oct;18(10):1404–1405. doi: 10.1093/bioinformatics/18.10.1404. [DOI] [PubMed] [Google Scholar]
- Raffelsberger Wolfgang, Dembélé Doulaye, Neubauer Mike G., Gottardis Marco M., Gronemeyer Hinrich. Quality indicators increase the reliability of microarray data. Genomics. 2002 Oct;80(4):385–394. doi: 10.1006/geno.2002.6848. [DOI] [PubMed] [Google Scholar]
- Randić Milan, Basak Subhash C. A comparative study of proteomics maps using graph theoretical biodescriptors. J Chem Inf Comput Sci. 2002 Sep-Oct;42(5):983–992. doi: 10.1021/ci0100797. [DOI] [PubMed] [Google Scholar]
- Randíc Milan, Novic Marjana, Vracko Marjan. On characterization of dose variations of 2-D proteomics maps by matrix invariants. J Proteome Res. 2002 May-Jun;1(3):217–226. doi: 10.1021/pr0100117. [DOI] [PubMed] [Google Scholar]
- Raychaudhuri Soumya, Schütze Hinrich, Altman Russ B. Using text analysis to identify functionally coherent gene groups. Genome Res. 2002 Oct;12(10):1582–1590. doi: 10.1101/gr.116402. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Raymond Jason, Zhaxybayeva Olga, Gogarten J. Peter, Gerdes Sveta Y., Blankenship Robert E. Whole-genome analysis of photosynthetic prokaryotes. Science. 2002 Nov 22;298(5598):1616–1620. doi: 10.1126/science.1075558. [DOI] [PubMed] [Google Scholar]
- Rejtar Tomas, Hu Ping, Juhasz Peter, Campbell Jennifer M., Vestal Marvin L., Preisler Jan, Karger Barry L. Off-line coupling of high-resolution capillary electrophoresis to MALDI-TOF and TOF/TOF MS. J Proteome Res. 2002 Mar-Apr;1(2):171–179. doi: 10.1021/pr015519o. [DOI] [PubMed] [Google Scholar]
- Richter A., Schwager C., Hentze S., Ansorge W., Hentze M. W., Muckenthaler M. Comparison of fluorescent tag DNA labeling methods used for expression analysis by DNA microarrays. Biotechniques. 2002 Sep;33(3):620-8, 630. doi: 10.2144/02333rr05. [DOI] [PubMed] [Google Scholar]
- Robson Barry, Mordasini Tiziana, Curioni Alessandro. Studies in the assessment of folding quality for protein modeling and structure prediction. J Proteome Res. 2002 Mar-Apr;1(2):115–133. doi: 10.1021/pr0155228. [DOI] [PubMed] [Google Scholar]
- Rogers P. David, Barker Katherine S. Evaluation of differential gene expression in fluconazole-susceptible and -resistant isolates of Candida albicans by cDNA microarray analysis. Antimicrob Agents Chemother. 2002 Nov;46(11):3412–3417. doi: 10.1128/AAC.46.11.3412-3417.2002. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Roses Allen D. Genome-based pharmacogenetics and the pharmaceutical industry. Nat Rev Drug Discov. 2002 Jul;1(7):541–549. doi: 10.1038/nrd840. [DOI] [PubMed] [Google Scholar]
- Ruotolo Brandon T., Verbeck Guido F., 4th, Thomson Lisa M., Woods Amina S., Gillig Kent J., Russell David H. Distinguishing between phosphorylated and nonphosphorylated peptides with ion mobility-mass spectrometry. J Proteome Res. 2002 Jul-Aug;1(4):303–306. doi: 10.1021/pr025516r. [DOI] [PubMed] [Google Scholar]
- Rupp Bernhard, Segelke Brent W., Krupka Heike I., Lekin Tim, Schäfer Johana, Zemla Adam, Toppani Dominique, Snell Gyorgy, Earnest Thomas. The TB structural genomics consortium crystallization facility: towards automation from protein to electron density. Acta Crystallogr D Biol Crystallogr. 2002 Sep 26;58(Pt 10 1):1514–1518. doi: 10.1107/s0907444902014282. [DOI] [PubMed] [Google Scholar]
- Sadygov Rovshan G., Eng Jimmy, Durr Eberhard, Saraf Anita, McDonald Hayes, MacCoss Michael J., Yates John R., 3rd Code developments to improve the efficiency of automated MS/MS spectra interpretation. J Proteome Res. 2002 May-Jun;1(3):211–215. doi: 10.1021/pr015514r. [DOI] [PubMed] [Google Scholar]
- Salekdeh Gh Hosseini, Siopongco Joel, Wade Leonard J., Ghareyazie Behzad, Bennett John. Proteomic analysis of rice leaves during drought stress and recovery. Proteomics. 2002 Sep;2(9):1131–1145. doi: 10.1002/1615-9861(200209)2:9<1131::AID-PROT1131>3.0.CO;2-1. [DOI] [PubMed] [Google Scholar]
- Sankar Narendra, Machado Jerry, Abdulla Parween, Hilliker Arthur J., Coe Imogen R. Comparative genomic analysis of equilibrative nucleoside transporters suggests conserved protein structure despite limited sequence identity. Nucleic Acids Res. 2002 Oct 15;30(20):4339–4350. doi: 10.1093/nar/gkf564. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Sankoff David. Short inversions and conserved gene cluster. Bioinformatics. 2002 Oct;18(10):1305–1308. doi: 10.1093/bioinformatics/18.10.1305. [DOI] [PubMed] [Google Scholar]
- Sasaki Takuji, Matsumoto Takashi, Yamamoto Kimiko, Sakata Katsumi, Baba Tomoya, Katayose Yuichi, Wu Jianzhong, Niimura Yoshihito, Cheng Zhukuan, Nagamura Yoshiaki. The genome sequence and structure of rice chromosome 1. Nature. 2002 Nov 21;420(6913):312–316. doi: 10.1038/nature01184. [DOI] [PubMed] [Google Scholar]
- Sato Ken-Ichi, Iwasaki Tetsushi, Sakakibara Ken-Ichi, Itakura Shuji, Fukami Yasuo. Towards the molecular dissection of fertilization signaling: Our functional genomic/proteomic strategies. Proteomics. 2002 Sep;2(9):1079–1089. doi: 10.1002/1615-9861(200209)2:9<1079::AID-PROT1079>3.0.CO;2-P. [DOI] [PubMed] [Google Scholar]
- Sawasaki Tatsuya, Ogasawara Tomio, Morishita Ryo, Endo Yaeta. A cell-free protein synthesis system for high-throughput proteomics. Proc Natl Acad Sci U S A. 2002 Oct 30;99(23):14652–14657. doi: 10.1073/pnas.232580399. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Schaeferling Michael, Schiller Stefan, Paul Hubert, Kruschina Margit, Pavlickova Petra, Meerkamp Mark, Giammasi Chiara, Kambhampati Dev. Application of self-assembly techniques in the design of biocompatible protein microarray surfaces. Electrophoresis. 2002 Sep;23(18):3097–3105. doi: 10.1002/1522-2683(200209)23:18<3097::AID-ELPS3097>3.0.CO;2-G. [DOI] [PubMed] [Google Scholar]
- Schell Mark A., Karmirantzou Maria, Snel Berend, Vilanova David, Berger Bernard, Pessi Gabriella, Zwahlen Marie-Camille, Desiere Frank, Bork Peer, Delley Michele. The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract. Proc Natl Acad Sci U S A. 2002 Oct 15;99(22):14422–14427. doi: 10.1073/pnas.212527599. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Shan Liang, He Mei, Yu Minshu, Qiu Cunping, Lee Norman H., Liu Edison T., Snyderwine Elizabeth G. cDNA microarray profiling of rat mammary gland carcinomas induced by 2-amino-1-methyl-6-phenylimidazo[4,5-b]pyridine and 7,12-dimethylbenz[a]anthracene. Carcinogenesis. 2002 Oct;23(10):1561–1568. doi: 10.1093/carcin/23.10.1561. [DOI] [PubMed] [Google Scholar]
- Shen Shihua, Matsubae Masami, Takao Toshifumi, Tanaka Naoki, Komatsu Setsuko. A proteomic analysis of leaf sheaths from rice. J Biochem. 2002 Oct;132(4):613–620. doi: 10.1093/oxfordjournals.jbchem.a003264. [DOI] [PubMed] [Google Scholar]
- Shen Yufeng, Smith Richard D. Proteomics based on high-efficiency capillary separations. Electrophoresis. 2002 Sep;23(18):3106–3124. doi: 10.1002/1522-2683(200209)23:18<3106::AID-ELPS3106>3.0.CO;2-Y. [DOI] [PubMed] [Google Scholar]
- Sillanpä Mikko J. Mathematics-assisted mapping in analysis of medical disease. Ann Med. 2002;34(4):291–298. doi: 10.1080/078538902320322556. [DOI] [PubMed] [Google Scholar]
- Simon H. G. Messenger RNA differential display strategies in birds and amphibians. Cell Mol Life Sci. 2002 Aug;59(8):1264–1273. doi: 10.1007/s00018-002-8505-8. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Sinchaikul Supachok, Sookkheo Boonyaras, Phutrakul Suree, Pan Fu-Ming, Chen Shui-Tein. Proteomic study of cold shock protein in Bacillus stearothermophilus P1: Comparison of temperature downshifts. Proteomics. 2002 Sep;2(9):1316–1324. doi: 10.1002/1615-9861(200209)2:9<1316::AID-PROT1316>3.0.CO;2-0. [DOI] [PubMed] [Google Scholar]
- Sinz Andrea, Bantscheff Marcus, Mikkat Stefan, Ringel Bruno, Drynda Susanne, Kekow Jörn, Thiesen Hans-Jürgen, Glocker Michael O. Mass spectrometric proteome analyses of synovial fluids and plasmas from patients suffering from rheumatoid arthritis and comparison to reactive arthritis or osteoarthritis. Electrophoresis. 2002 Sep;23(19):3445–3456. doi: 10.1002/1522-2683(200210)23:19<3445::AID-ELPS3445>3.0.CO;2-J. [DOI] [PubMed] [Google Scholar]
- Sommer Andrei P., Franke Ralf-Peter. Near-field optical analysis of living cells in vitro. J Proteome Res. 2002 Mar-Apr;1(2):111–114. doi: 10.1021/pr025501t. [DOI] [PubMed] [Google Scholar]
- Sookkheo Boonyaras, Sinchaikul Supachok, Thannan Harutai, Thongprasong Orapun, Phutrakul Suree, Chen Shui-Tein. Proteomic analysis of a thermostable superoxide dismutase from Bacillus stearothermophilus TLS33. Proteomics. 2002 Sep;2(9):1311–1315. doi: 10.1002/1615-9861(200209)2:9<1311::AID-PROT1311>3.0.CO;2-U. [DOI] [PubMed] [Google Scholar]
- Spruill Susan E., Lu Jun, Hardy Sarah, Weir Bruce. Assessing sources of variability in microarray gene expression data. Biotechniques. 2002 Oct;33(4):916-20, 922-3. doi: 10.2144/02334mt05. [DOI] [PubMed] [Google Scholar]
- Stadler Frank, Hales Dinah. Highly-resolving two-dimensional electrophoresis for the study of insect proteins. Proteomics. 2002 Sep;2(9):1347–1353. doi: 10.1002/1615-9861(200209)2:9<1347::AID-PROT1347>3.0.CO;2-P. [DOI] [PubMed] [Google Scholar]
- Stein J., Liang P. Differential display technology: a general guide. Cell Mol Life Sci. 2002 Aug;59(8):1235–1240. doi: 10.1007/s00018-002-8501-z. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Stein Lincoln D., Mungall Christopher, Shu ShengQiang, Caudy Michael, Mangone Marco, Day Allen, Nickerson Elizabeth, Stajich Jason E., Harris Todd W., Arva Adrian. The generic genome browser: a building block for a model organism system database. Genome Res. 2002 Oct;12(10):1599–1610. doi: 10.1101/gr.403602. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Stein S., Liang P. Differential display analysis of gene expression in mammals: a p53 story. Cell Mol Life Sci. 2002 Aug;59(8):1274–1279. doi: 10.1007/s00018-002-8506-7. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Sterrenburg Ellen, Turk Rolf, Boer Judith M., van Ommen Gertjan B., den Dunnen Johan T. A common reference for cDNA microarray hybridizations. Nucleic Acids Res. 2002 Nov 1;30(21):e116–e116. doi: 10.1093/nar/gnf115. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Sun Duxin, Lennernas Hans, Welage Lynda S., Barnett Jeffery L., Landowski Christopher P., Foster David, Fleisher David, Lee Kyung-Dall, Amidon Gordon L. Comparison of human duodenum and Caco-2 gene expression profiles for 12,000 gene sequences tags and correlation with permeability of 26 drugs. Pharm Res. 2002 Oct;19(10):1400–1416. doi: 10.1023/a:1020483911355. [DOI] [PubMed] [Google Scholar]
- Szabados László, Kovács Izabella, Oberschall Attila, Abrahám Edit, Kerekes Irén, Zsigmond Laura, Nagy Réka, Alvarado Martha, Krasovskaja Inga, Gál Mónika. Distribution of 1000 sequenced T-DNA tags in the Arabidopsis genome. Plant J. 2002 Oct;32(2):233–242. doi: 10.1046/j.1365-313x.2002.01417.x. [DOI] [PubMed] [Google Scholar]
- Talaat Adel M., Howard Susan T., Hale Walker, 4th, Lyons Rick, Garner Harold, Johnston Stephen Albert. Genomic DNA standards for gene expression profiling in Mycobacterium tuberculosis. Nucleic Acids Res. 2002 Oct 15;30(20):e104–e104. doi: 10.1093/nar/gnf103. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Tan Y. P., Lin Q., Wang X. H., Joshi S., Hew C. L., Leung K. Y. Comparative proteomic analysis of extracellular proteins of Edwardsiella tarda. Infect Immun. 2002 Nov;70(11):6475–6480. doi: 10.1128/IAI.70.11.6475-6480.2002. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Tani Travis H., Khodursky Arkady, Blumenthal Robert M., Brown Patrick O., Matthews Rowena G. Adaptation to famine: a family of stationary-phase genes revealed by microarray analysis. Proc Natl Acad Sci U S A. 2002 Oct 8;99(21):13471–13476. doi: 10.1073/pnas.212510999. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Taylor Steven W., Warnock Dale E., Glenn Gary M., Zhang Bing, Fahy Eoin, Gaucher Sara P., Capaldi Roderick A., Gibson Bradford W., Ghosh Soumitra S. An alternative strategy to determine the mitochondrial proteome using sucrose gradient fractionation and 1D PAGE on highly purified human heart mitochondria. J Proteome Res. 2002 Sep-Oct;1(5):451–458. doi: 10.1021/pr025533g. [DOI] [PubMed] [Google Scholar]
- Tettelin Herve, Masignani Vega, Cieslewicz Michael J., Eisen Jonathan A., Peterson Scott, Wessels Michael R., Paulsen Ian T., Nelson Karen E., Margarit Immaculada, Read Timothy D. Complete genome sequence and comparative genomic analysis of an emerging human pathogen, serotype V Streptococcus agalactiae. Proc Natl Acad Sci U S A. 2002 Aug 28;99(19):12391–12396. doi: 10.1073/pnas.182380799. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Thongboonkerd Visith, Gozal Evelyne, Sachleben Leroy R., Jr, Arthur John M., Pierce William M., Cai Jian, Chao Julie, Bader Michael, Pesquero Joao B., Gozal David. Proteomic analysis reveals alterations in the renal kallikrein pathway during hypoxia-induced hypertension. J Biol Chem. 2002 Jul 16;277(38):34708–34716. doi: 10.1074/jbc.M203799200. [DOI] [PubMed] [Google Scholar]
- Thongboonkerd Visith, McLeish Kenneth R., Arthur John M., Klein Jon B. Proteomic analysis of normal human urinary proteins isolated by acetone precipitation or ultracentrifugation. Kidney Int. 2002 Oct;62(4):1461–1469. doi: 10.1111/j.1523-1755.2002.kid565.x. [DOI] [PubMed] [Google Scholar]
- Thorns Christoph, Gaiser Timo, Lange Karin, Merz Hartmut, Feller Alfred C. cDNA arrays: gene expression profiles of Hodgkin's disease and anaplastic large cell lymphoma cell lines. Pathol Int. 2002 Sep;52(9):578–585. doi: 10.1046/j.1320-5463.2002.01400.x. [DOI] [PubMed] [Google Scholar]
- Tomlinson Andy J., Hincapie Marina, Morris George E., Chicz Roman M. Global proteome analysis of a human gastric carcinoma. Electrophoresis. 2002 Sep;23(18):3233–3240. doi: 10.1002/1522-2683(200209)23:18<3233::AID-ELPS3233>3.0.CO;2-3. [DOI] [PubMed] [Google Scholar]
- Tsai Y. J., Hoyme H. E. Pharmacogenomics: the future of drug therapy. Clin Genet. 2002 Oct;62(4):257–264. doi: 10.1034/j.1399-0004.2002.620401.x. [DOI] [PubMed] [Google Scholar]
- Tsolis Renée M. Comparative genome analysis of the alpha -proteobacteria: relationships between plant and animal pathogens and host specificity. Proc Natl Acad Sci U S A. 2002 Sep 23;99(20):12503–12505. doi: 10.1073/pnas.212508599. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Tu Y., Stolovitzky G., Klein U. Quantitative noise analysis for gene expression microarray experiments. Proc Natl Acad Sci U S A. 2002 Oct 18;99(22):14031–14036. doi: 10.1073/pnas.222164199. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Tucker Chandra L. High-throughput cell-based assays in yeast. Drug Discov Today. 2002 Sep 15;7(18 Suppl):S125–S130. doi: 10.1016/s1359-6446(02)02409-1. [DOI] [PubMed] [Google Scholar]
- Tunlid Anders, Talbot Nicholas J. Genomics of parasitic and symbiotic fungi. Curr Opin Microbiol. 2002 Oct;5(5):513–519. doi: 10.1016/s1369-5274(02)00355-7. [DOI] [PubMed] [Google Scholar]
- Urnov Fyodor D., Rebar Edward J. Designed transcription factors as tools for therapeutics and functional genomics. Biochem Pharmacol. 2002 Sep;64(5-6):919–923. doi: 10.1016/s0006-2952(02)01150-4. [DOI] [PubMed] [Google Scholar]
- Uversky Vladimir N., Permyakov Sergey E., Zagranichny Vasily E., Rodionov Igor L., Fink Anthony L., Cherskaya Alexandra M., Wasserman Lyubov A., Permyakov Eugene A. Effect of zinc and temperature on the conformation of the gamma subunit of retinal phosphodiesterase: a natively unfolded protein. J Proteome Res. 2002 Mar-Apr;1(2):149–159. doi: 10.1021/pr0155127. [DOI] [PubMed] [Google Scholar]
- Van Sluys M. A., Monteiro-Vitorello C. B., Camargo L. E. A., Menck C. F. M., Da Silva A. C. R., Ferro J. A., Oliveira M. C., Setubal J. C., Kitajima J. P., Simpson A. J. Comparative genomic analysis of plant-associated bacteria. Annu Rev Phytopathol. 2002 May 13;40:169–189. doi: 10.1146/annurev.phyto.40.030402.090559. [DOI] [PubMed] [Google Scholar]
- Vandepoele Klaas, Saeys Yvan, Simillion Cedric, Raes Jeroen, Van De Peer Yves. The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice. Genome Res. 2002 Nov;12(11):1792–1801. doi: 10.1101/gr.400202. [DOI] [PMC free article] [PubMed] [Google Scholar]
- VerBerkmoes Nathan C., Bundy Jonathan L., Hauser Loren, Asano Keiji G., Razumovskaya Jane, Larimer Frank, Hettich Robert L., Stephenson James L., Jr Integrating 'top-down" and "bottom-up" mass spectrometric approaches for proteomic analysis of Shewanella oneidensis. J Proteome Res. 2002 May-Jun;1(3):239–252. doi: 10.1021/pr025508a. [DOI] [PubMed] [Google Scholar]
- Vivarès Christian P., Gouy Manolo, Thomarat Fabienne, Méténier Guy. Functional and evolutionary analysis of a eukaryotic parasitic genome. Curr Opin Microbiol. 2002 Oct;5(5):499–505. doi: 10.1016/s1369-5274(02)00356-9. [DOI] [PubMed] [Google Scholar]
- Vu Tra Thi, Vohradsky Jiri. Genexp--a genetic network simulation environment. Bioinformatics. 2002 Oct;18(10):1400–1401. doi: 10.1093/bioinformatics/18.10.1400. [DOI] [PubMed] [Google Scholar]
- Wada Yasuhiko, Kayo Tsuyoshi, Koizumi Akio. Characterization of gene expression profile associated with energy restriction-induced cold tolerance of heart. Microsc Res Tech. 2002 Nov 15;59(4):313–316. doi: 10.1002/jemt.10210. [DOI] [PubMed] [Google Scholar]
- Wait Robin, Miller Ingrid, Eberini Ivano, Cairoli Fausto, Veronesi Cristina, Battocchio Massimiliano, Gemeiner Manfred, Gianazza Elisabetta. Strategies for proteomics with incompletely characterized genomes: the proteome of Bos taurus serum. Electrophoresis. 2002 Sep;23(19):3418–3427. doi: 10.1002/1522-2683(200210)23:19<3418::AID-ELPS3418>3.0.CO;2-7. [DOI] [PubMed] [Google Scholar]
- Wall Daniel B., Berger Scott J., Finch Jeffrey W., Cohen Steven A., Richardson Keith, Chapman Richard, Drabble Darren, Brown Jeffery, Gostick Dominic. Continuous sample deposition from reversed-phase liquid chromatography to tracks on a matrix-assisted laser desorption/ionization precoated target for the analysis of protein digests. Electrophoresis. 2002 Sep;23(18):3193–3204. doi: 10.1002/1522-2683(200209)23:18<3193::AID-ELPS3193>3.0.CO;2-Y. [DOI] [PubMed] [Google Scholar]
- Wallqvist Anders, Rabow Alfred A., Shoemaker Robert H., Sausville Edward A., Covell David G. Establishing connections between microarray expression data and chemotherapeutic cancer pharmacology. Mol Cancer Ther. 2002 Mar;1(5):311–320. [PubMed] [Google Scholar]
- Wang Cheng C., Huang Ruo-Pan, Sommer Martin, Lisoukov Henry, Huang Ruochun, Lin Ying, Miller Thomas, Burke Jocelyn. Array-based multiplexed screening and quantitation of human cytokines and chemokines. J Proteome Res. 2002 Jul-Aug;1(4):337–343. doi: 10.1021/pr0255203. [DOI] [PubMed] [Google Scholar]
- Wang Haixing, Kachman Maureen T., Schwartz Donald R., Cho Kathleen R., Lubman David M. A protein molecular weight map of ES2 clear cell ovarian carcinoma cells using a two-dimensional liquid separations/mass mapping technique. Electrophoresis. 2002 Sep;23(18):3168–3181. doi: 10.1002/1522-2683(200209)23:18<3168::AID-ELPS3168>3.0.CO;2-A. [DOI] [PubMed] [Google Scholar]
- Weidenhammer Elaine M., Kahl Brenda F., Wang Ling, Wang Larry, Duhon Melanie, Jackson Jo Ann, Slater Matthew, Xu Xiao. Multiplexed, targeted gene expression profiling and genetic analysis on electronic microarrays. Clin Chem. 2002 Nov;48(11):1873–1882. [PubMed] [Google Scholar]
- Weinberger Scot R., Viner Rosa I., Ho Patrick. Tagless extraction-retentate chromatography: a new global protein digestion strategy for monitoring differential protein expression. Electrophoresis. 2002 Sep;23(18):3182–3192. doi: 10.1002/1522-2683(200209)23:18<3182::AID-ELPS3182>3.0.CO;2-5. [DOI] [PubMed] [Google Scholar]
- Weinschenk Toni, Gouttefangeas Cécile, Schirle Markus, Obermayr Florian, Walter Steffen, Schoor Oliver, Kurek Raffael, Loeser Wolfgang, Bichler Karl-Horst, Wernet Dorothee. Integrated functional genomics approach for the design of patient-individual antitumor vaccines. Cancer Res. 2002 Oct 15;62(20):5818–5827. [PubMed] [Google Scholar]
- Werner-Washburne Margaret, Wylie Brian, Boyack Kevin, Fuge Edwina, Galbraith Judith, Weber Jose, Davidson George. Comparative analysis of multiple genome-scale data sets. Genome Res. 2002 Oct;12(10):1564–1573. doi: 10.1101/gr.225402. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wetterhall Magnus, Palmblad Magnus, Håkansson Per, Markides Karin E., Bergquist Jonas. Rapid analysis of tryptically digested cerebrospinal fluid using capillary electrophoresis-electrospray ionization-Fourier transform ion cyclotron resonance-mass spectrometry. J Proteome Res. 2002 Jul-Aug;1(4):361–366. doi: 10.1021/pr025526s. [DOI] [PubMed] [Google Scholar]
- Wicker Nicolas, Dembele Doulaye, Raffelsberger Wolfgang, Poch Olivier. Density of points clustering, application to transcriptomic data analysis. Nucleic Acids Res. 2002 Sep 15;30(18):3992–4000. doi: 10.1093/nar/gkf511. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wilkinson M. D., Block D., Crosby W. L. Genquire: genome annotation browser/editor. Bioinformatics. 2002 Oct;18(10):1398–1399. doi: 10.1093/bioinformatics/18.10.1398. [DOI] [PubMed] [Google Scholar]
- Wilson James W., Ramamurthy Rajee, Porwollik Steffen, McClelland Michael, Hammond Timothy, Allen Pat, Ott C. Mark, Pierson Duane L., Nickerson Cheryl A. Microarray analysis identifies Salmonella genes belonging to the low-shear modeled microgravity regulon. Proc Natl Acad Sci U S A. 2002 Oct 7;99(21):13807–13812. doi: 10.1073/pnas.212387899. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wilson Karen A., McManus Michael T., Gordon Margaret E., Jordan T. William. The proteomics of senescence in leaves of white clover, Trifolium repens (L.). Proteomics. 2002 Sep;2(9):1114–1122. doi: 10.1002/1615-9861(200209)2:9<1114::AID-PROT1114>3.0.CO;2-O. [DOI] [PubMed] [Google Scholar]
- Woodbury Ronald L., Varnum Susan M., Zangar Richard C. Elevated HGF levels in sera from breast cancer patients detected using a protein microarray ELISA. J Proteome Res. 2002 May-Jun;1(3):233–237. doi: 10.1021/pr025506q. [DOI] [PubMed] [Google Scholar]
- Wu Shiaw-Lin, Amato Heidi, Biringer Roger, Choudhary Gargi, Shieh Paul, Hancock William S. Targeted proteomics of low-level proteins in human plasma by LC/MSn: using human growth hormone as a model system. J Proteome Res. 2002 Sep-Oct;1(5):459–465. doi: 10.1021/pr025537l. [DOI] [PubMed] [Google Scholar]
- Wu W., Hu W., Kavanagh J. J. Proteomics in cancer research. Int J Gynecol Cancer. 2002 Sep-Oct;12(5):409–423. doi: 10.1046/j.1525-1438.2002.01200.x. [DOI] [PubMed] [Google Scholar]
- Yamagata Akira, Kristensen Dan Bach, Takeda Yoshiko, Miyamoto Yuka, Okada Keiko, Inamatsu Mutsumi, Yoshizato Katsutoshi. Mapping of phosphorylated proteins on two-dimensional polyacrylamide gels using protein phosphatase. Proteomics. 2002 Sep;2(9):1267–1276. doi: 10.1002/1615-9861(200209)2:9<1267::AID-PROT1267>3.0.CO;2-R. [DOI] [PubMed] [Google Scholar]
- Yamazaki M., Saito K. Differential display analysis of gene expression in plants. Cell Mol Life Sci. 2002 Aug;59(8):1246–1255. doi: 10.1007/s00018-002-8503-x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Yano Hiroyuki, Kuroda Shigeru, Buchanan Bob B. Disulfide proteome in the analysis of protein function and structure. Proteomics. 2002 Sep;2(9):1090–1096. doi: 10.1002/1615-9861(200209)2:9<1090::AID-PROT1090>3.0.CO;2-1. [DOI] [PubMed] [Google Scholar]
- Ye Shui Q., Usher David C., Zhang Li Q. Gene expression profiling of human diseases by serial analysis of gene expression. J Biomed Sci. 2002 Sep-Oct;9(5):384–394. doi: 10.1007/BF02256531. [DOI] [PubMed] [Google Scholar]
- Yi Eugene C., Marelli Marcello, Lee Hookeun, Purvine Samuel O., Aebersold Ruedi, Aitchison John D., Goodlett David R. Approaching complete peroxisome characterization by gas-phase fractionation. Electrophoresis. 2002 Sep;23(18):3205–3216. doi: 10.1002/1522-2683(200209)23:18<3205::AID-ELPS3205>3.0.CO;2-Y. [DOI] [PubMed] [Google Scholar]
- Yokoi Akira, Kuromitsu Junro, Kawai Takatoshi, Nagasu Takeshi, Sugi Naoko Hata, Yoshimatsu Kentaro, Yoshino Hiroshi, Owa Takashi. Profiling novel sulfonamide antitumor agents with cell-based phenotypic screens and array-based gene expression analysis. Mol Cancer Ther. 2002 Feb;1(4):275–286. [PubMed] [Google Scholar]
- Zeytun Ahmet, McKallip Robert J., Fisher Michael, Camacho Iris, Nagarkatti Mitzi, Nagarkatti Prakash S. Analysis of 2,3,7,8-tetrachlorodibenzo-p-dioxin-induced gene expression profile in vivo using pathway-specific cDNA arrays. Toxicology. 2002 Sep 16;178(3):241–260. doi: 10.1016/s0300-483x(02)00230-5. [DOI] [PubMed] [Google Scholar]
- Zhang Michael Q. Extracting functional information from microarrays: a challenge for functional genomics. Proc Natl Acad Sci U S A. 2002 Sep 23;99(20):12509–12511. doi: 10.1073/pnas.212532499. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Zhang Roujian, Regnier Fred E. Minimizing resolution of isotopically coded peptides in comparative proteomics. J Proteome Res. 2002 Mar-Apr;1(2):139–147. doi: 10.1021/pr015516b. [DOI] [PubMed] [Google Scholar]
- Zhang Xueshu, Chen Zhuang, Huang Hui, Gordon John R., Xiang Jim. DNA microarray analysis of the gene expression profiles of naïve versus activated tumor-specific T cells. Life Sci. 2002 Nov 8;71(25):3005–3017. doi: 10.1016/s0024-3205(02)02164-1. [DOI] [PubMed] [Google Scholar]
- Zhang Zhaolei, Harrison Paul, Gerstein Mark. Identification and analysis of over 2000 ribosomal protein pseudogenes in the human genome. Genome Res. 2002 Oct;12(10):1466–1482. doi: 10.1101/gr.331902. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Zheng Xi, Ravatn Roald, Lin Yong, Shih Wei-Chung, Rabson Arnold, Strair Roger, Huberman Eliezer, Conney Allan, Chin Khew-Voon. Gene expression of TPA induced differentiation in HL-60 cells by DNA microarray analysis. Nucleic Acids Res. 2002 Oct 15;30(20):4489–4499. doi: 10.1093/nar/gkf580. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Zhu Haining, Pan Songqin, Gu Sheng, Bradbury E. Morton, Chen Xian. Amino acid residue specific stable isotope labeling for quantitative proteomics. Rapid Commun Mass Spectrom. 2002;16(22):2115–2123. doi: 10.1002/rcm.831. [DOI] [PubMed] [Google Scholar]
- Zo Young-Gun, Rivera Irma N. G., Russek-Cohen Estelle, Islam M. Sirajul, Siddique A. K., Yunus M., Sack R. Bradley, Huq Anwar, Colwell Rita R. Genomic profiles of clinical and environmental isolates of Vibrio cholerae O1 in cholera-endemic areas of Bangladesh. Proc Natl Acad Sci U S A. 2002 Aug 30;99(19):12409–12414. doi: 10.1073/pnas.192426499. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Zogakis T. G., Costouros N. G., Kruger E. A., Forbes S., He M., Qian M., Feldman A. L., Figg W. D., Alexander H. R., Liu E. T. Microarray gene expression profiling of angiogenesis inhibitors using the rat aortic ring assay. Biotechniques. 2002 Sep;33(3):664-6, 668, 670. doi: 10.2144/02333dd02. [DOI] [PubMed] [Google Scholar]
