article Genome-wide survey of protein kinases required for cell cycle progression
M. Bettencourt-Dias, R. Giet, R. Sinka, A. Mazumdar, W. G. Lock, F. Balloux, P. J. Zafiropoulos, S. Yamaguchi, S. Winter, R. W. Carthew, M. Cooper, D. Jones, L. Frenz and D. M. Glover Nature432, 980–987
(23 December 2004); doi:10.1038/nature03160
| Abstract | Full Text (HTML / PDF) |
letters to nature Accurate multiplex gene synthesis from programmable DNA microchips
Jingdong Tian, Hui Gong, Nijing Sheng, Xiaochuan Zhou, Erdogan Gulari, Xiaolian Gao and George Church Nature432, 1050–1054
(23 December 2004); doi:10.1038/nature03151
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technical report Protein microarrays for multiplex analysis of signal transduction pathways
Steven M Chan, Joerg Ermann, Leon Su, C Garrison Fathman and Paul J Utz Nature Medicine10, 1390–1396
(December 2004); doi:10.1038/nm1139
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technical report Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays
Sonali Mukherjee, Michael F Berger, Ghil Jona, Xun S Wang, Dale Muzzey, Michael Snyder, Richard A Young and Martha L Bulyk Nature Genetics36, 1331–1339
(December 2004); doi:10.1038/ng1473
| Abstract | Full Text (HTML/PDF) |
review article Large-scale database searching using tandem mass spectra: Looking up the answer in the back of the book
Rovshan G Sadygov, Daniel Cociorva and John R Yates III Nature Methods1, 195–202
(December 2004); doi:10.1038/nmeth725
| Abstract | Full Text (HTML/PDF) |
review article The genetics of cell death: approaches, insights and opportunities in Drosophila
Bruce A. Hay, Jun R. Huh and Ming Guo Nature Reviews Genetics5, 911–922
(December 2004); doi:10.1038/nrg1491
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article High-throughput localization of functional elements by quantitative chromatin profiling Michael O Dorschner, Michael Hawrylycz, Richard Humbert, James C Wallace, Anthony Shafer, Janelle Kawamoto, Joshua Mack, Robert Hall, Jeff Goldy, Peter J Sabo, Ajay Kohli, Qiliang Li, Michael McArthur and John A Stamatoyannopoulos Nature Methods1, 219–225
(December 2004); doi:10.1038/nmeth721
| Abstract | Full Text (HTML/PDF) |
November
article RNAi living-cell microarrays for loss-of-function screens in Drosophila melanogaster cells
Douglas B Wheeler, Steve N Bailey, David A Guertin, Anne E Carpenter, Caitlin O Higgins and David M Sabatini Nature Methods1, 127–132
(November 2004); doi:10.1038/nmeth711
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news and views 5,000 RNAi experiments on a chip
Ben Lehner and Andrew G Fraser Nature Methods1, 103–104
(November 2004); doi:10.1038/nmeth1104-103
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article Microarray-based, high-throughput gene expression profiling of microRNAs
Peter T Nelson, Don A Baldwin, L Marie Scearce, J Carl Oberholtzer, John W Tobias and Zissimos Mourelatos Nature Methods1, 155–161
(November 2004); doi:10.1038/nmeth717
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news and views The age of high-throughput microRNA profiling
Aurora Esquela-Kerscher and Frank J Slack Nature Methods1, 106–107
(November 2004); doi:10.1038/nmeth1104-106
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review article Human brain evolution: insights from microarrays
Todd M. Preuss , Mario Càceres , Michael C. Oldham and Daniel H. Geschwind Nature Reviews Genetics5, 850–860
(November 2004); doi:10.1038/nrg1469
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technology feature Bioinformatics—from genes to pathways
Laura Bonetta Nature Methods1, 169–176
(November 2004); doi:10.1038/nmeth1104-169
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review article Genome-scale models of microbial cells: evaluating the consequences of constraints
Nathan D. Price, Jennifer L. Reed and Bernhard Ø. Palsson Nature Reviews Microbiology2, 886–897
(November 2004); doi:10.1038/nrmicro1023
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review article Functional genomics to new drug targets
Richard Kramer and Dalia Cohen Nature Reviews Drug Discovery3, 965–972
(November 2004); doi:10.1038/nrd1552
| Abstract | Full Text (HTML / PDF) |
October
letter Prediction of sequence-dependent and mutational effects on the aggregation of peptides and proteins
Ana-Maria Fernandez-Escamilla, Frederic Rousseau, Joost Schymkowitz and Luis Serrano Nature Biotechnology22, 1302–1306
(October 2004); doi:10.1038/nbt1012
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news and views A universal TANGO?
Vijay S Pande Nature Biotechnology22, 1240–1241
(October 2004); doi:10.1038/nbt1004-1240
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article A custom microarray platform for analysis of microRNA gene expression
J Michael Thomson, Joel Parker, Charles M Perou and Scott M Hammond Nature Methods1, 47–53
(October 2004); doi:10.1038/nmeth704
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review article Exploiting biological complexity for strain improvement through systems biology
Gregory Stephanopoulos, Hal Alper and Joel Moxley Nature Biotechnology22, 1261–1267
(October 2004); doi:10.1038/nbt1016
| Abstract | Full Text (HTML/PDF) |
review article Genetic predisposition to cancer — insights from population genetics
Steven A. Frank Nature Reviews Genetics5, 764–772
(October 2004); doi:10.1038/nrg1450
| Abstract | Full Text (HTML / PDF) |
article Automated approach for quantitative analysis of complex peptide mixtures from tandem mass spectra
John D Venable, Meng-Qiu Dong, James Wohlschlegel, Andrew Dillin and John R Yates III Nature Methods1, 39–45
(October 2004); doi:10.1038/nmeth705
| Abstract | Full Text (HTML/PDF) |
news and views Shotgun mass spec goes independent
Daniel C Liebler Nature Methods1, 16–17
(October 2004); doi:10.1038/nmeth1004-16
| Abstract | Full Text (HTML/PDF) |
letter A module map showing conditional activity of expression modules in cancer
Eran Segal, Nir Friedman, Daphne Koller and Aviv Regev Nature Genetics36, 1090–1098
(October 2004); doi:10.1038/ng1434
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historical perspective The evolution of molecular biology into systems biology
Hans V Westerhoff and Bernhard O Palsson Nature Biotechnology22, 1249–1252
(October 2004); doi:10.1038/nbt1020
| Abstract | Full Text (HTML/PDF) |
September
review article The abc's (and xyz's) of peptide sequencing
Hanno Steen and Matthias Mann Nature Reviews Molecular Cell Biology5, 699–711
(September 2004); doi:10.1038/nrm1468
| Abstract | Full Text (HTML / PDF) |
research article Temporal analysis of phosphotyrosine-dependent signaling networks by quantitative proteomics
Blagoy Blagoev, Shao-En Ong, Irina Kratchmarova and Matthias Mann Nature Biotechnology22, 1139–1145
(September 2004); doi:10.1038/nbt1005
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news and views Phosphoproteomics finds its timing
Sam A Johnson and Tony Hunter Nature Biotechnology22, 1093–1094
(September 2004); doi:10.1038/nbt0904-1093
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letters to nature Genomic analysis of regulatory network dynamics reveals large topological changes
Nicholas M. Luscombe, M. Madan Babu, Haiyuan Yu, Michael Snyder, Sarah A. Teichmann and Mark Gerstein Nature431, 308–312
(16 September 2004); doi:10.1038/nature02782
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letters to nature Transcriptional regulatory code of a eukaryotic genome
Christopher T. Harbison, D. Benjamin Gordon, Tong Ihn Lee, Nicola J. Rinaldi, Kenzie D. Macisaac, Timothy W. Danford, Nancy M. Hannett, Jean–Bosco Tagne, David B. Reynolds, Jane Yoo, Ezra G. Jennings, Julia Zeitlinger, Dmitry K. Pokholok, Manolis Kellis, P. Alex Rolfe, Ken T. Takusagawa, Eric S. Lander, David K. Gifford, Ernest Fraenkel and Richard A. Young Nature431, 99–104
(02 September 2004); doi:10.1038/nature02800
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August
article Periodic gene expression program of the fission yeast cell cycle
Gabriella Rustici, Juan Mata, Katja Kivinen, Pietro Lió, Christopher J Penkett, Gavin Burns, Jacqueline Hayles, Alvis Brazma, Paul Nurse and Jürg Bähler Nature Genetics36, 809–817
(August 2004); doi:10.1038/ng1377
| Abstract | Full Text (HTML/PDF) |
news and views STARTing to recycle
Gavin Sherlock Nature Genetics36, 795–796
(August 2004); doi:10.1038/ng0804-795
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research article Direct proteomic mapping of the lung microvascular endothelial cell surface in vivo and in cell culture
Eberhard Durr, Jingyi Yu, Karolina M Krasinska, Lucy A Carver, John R Yates, Jacqueline E Testa III, Phil Oh and Jan E Schnitzer Nature Biotechnology22, 985–992
(August 2004); doi:10.1038/nbt993
| Abstract | Full Text (HTML/PDF) |
research article Systematic identification of abundant A-to-I editing sites in the human transcriptome
Erez Y Levanon, Eli Eisenberg, Rodrigo Yelin, Sergey Nemzer, Martina Hallegger, Ronen Shemesh, Zipora Y Fligelman, Avi Shoshan, Sarah R Pollock, Dan Sztybel, Moshe Olshansky, Gideon Rechavi and Michael F Jantsch Nature Biotechnology22, 1001–1005
(August 2004); doi:10.1038/nbt996
| Abstract | Full Text (HTML/PDF) |
news and views Editing the message from A to I
Kazuko Nishikura Nature Biotechnology22, 962–963
(August 2004); doi:10.1038/nbt0804-962
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article Genetic analysis of genome-wide variation in human gene expression
Michael Morley , Cliona M. Molony, Teresa M. Weber, James L. Devlin, Kathryn G. Ewens, Richard S. Spielman and Vivian G. Cheung Nature430, 743–747
(12 August 2004); doi:10.1038/nature02797
| Summary | Full Text (HTML / PDF) |
news and views Human genetics: An expression of interest
Nancy J. Cox Nature430, 733–734
(12 August 2004); doi:10.1038/430733a
| Full Text (HTML / PDF) |
research article In silico simulation of biological network dynamics
Lukasz Salwinski and David Eisenberg Nature Biotechnology22, 1017–1019
(August 2004); doi:10.1038/nbt991
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news and views The need for speed in stochastic simulation
Larry Lok Nature Biotechnology22, 964–965
(August 2004); doi:10.1038/nbt0804-964
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perspectives Opinion: Integrated global profiling of cancer
Samir Hanash Nature Reviews Cancer4, 638–644
(August 2004); doi:10.1038/nrc1414
| Abstract | Full Text (HTML / PDF) |
research article Analysis of the transcriptional complexity of Arabidopsis thaliana by massively parallel signature sequencing
Blake C Meyers, Tam H Vu, Shivakundan Singh Tej, Hassan Ghazal, Marta Matvienko, Vikas Agrawal, Jianchang Ning and Christian D Haudenschild Nature Biotechnology22, 1006–1011
(August 2004); doi:10.1038/nbt992
| Abstract | Full Text (HTML/PDF) |
news and views Tagging all genes
Jeffrey F D Dean Nature Biotechnology22, 961–962
(August 2004); doi:10.1038/nbt0804-961
| Full Text (HTML/PDF) |
July
review article Insights into morphogenesis from a simple developmental system
Rex L. Chisholm and Richard A. Firtel Nature Reviews Molecular Cell Biology5, 531–541
(July 2004); doi:10.1038/nrm1427
| Abstract | Full Text (HTML / PDF) |
article Oxygen sensation and social feeding mediated by a C. elegans guanylate cyclase homologue
Jesse M. Gray, David S. Karow, Hang Lu, Andy J. Chang, Jennifer S. Chang, Ronald E. Ellis, Michael A. Marletta and Cornelia I. Bargmann Nature430, 317–322
(15 July 2004); doi:10.1038/nature02714
| Abstract | Full Text (HTML / PDF) |
letters to nature Evidence for dynamically organized modularity in the yeast protein–protein interaction network
Jing-Dong J. Han, Nicolas Bertin, Tong Hao, Debra S. Goldberg, Gabriel F. Berriz, Lan V. Zhang, Denis Dupuy, Albertha J. M. Walhout, Michael E. Cusick, Frederick P. Roth & Marc Vidal Nature430, 88–93
(01 July 2004); doi:10.1038/nature02555
| Abstract | Full Text (HTML / PDF) |
June
letters to nature Enhanced partner preference in a promiscuous species by manipulating the expression of a single gene
Miranda M. Lim, Zuoxin Wang, Daniel E. Olazábal, Xianghui Ren, Ernest F. Terwilliger and Larry J. Young Nature429, 754–757
(17 June 2004); doi:10.1038/nature02539
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news and views Neurobiology: Why voles stick together
Evan Balaban Nature429, 711–712
(17 June 2004); doi:10.1038/429711a
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article Subtractive proteomic mapping of the endothelial surface in lung and solid tumours for tissue-specific therapy
Phil Oh, Yan Li, Jingyi Yu, Eberhard Durr, Karolina M. Krasinska, Lucy A. Carver, Jacqueline E. Testa and Jan E. Schnitzer Nature429, 629–635
(10 June 2004); doi:10.1038/nature02580
| Abstract | Full Text (HTML / PDF) |
news and views Molecular medicine: The writing is on the vessel wall
Christopher H. Contag and Michael H. Bachmann Nature429, 618–619
(10 June 2004); doi:10.1038/429618a
| Full Text (HTML / PDF) |
letters to nature Metabolic network analysis of the causes and evolution of enzyme dispensability in yeast
Balázs Papp, Csaba Pál and Laurence D. Hurst Nature429, 661–664
(10 June 2004); doi:10.1038/nature02636
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research article Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation
Ralph Brandenberger, Henry Wei, Sally Zhang, Shirley Lei, Jaji Murage, Gregory J Fisk, Yan Li, Chunhui Xu, Rixun Fang, Karl Guegler, Mahendra S Rao, Ramumkar Mandalam, Jane Lebkowski and Lawrence W Stanton Nature Biotechnology22, 707–716
(June 2004); doi:10.1038/nbt971
| Abstract | Full Text (HTML/PDF) |
review article Mathematical and computational models of immune-receptor signalling
Byron Goldstein, James R. Faeder and William S. Hlavacek Nature Reviews Immunology4, 445–456
(June 2004); doi:10.1038/nri1374
| Abstract | Full Text (HTML / PDF) |
May
letters to nature An autonomous molecular computer for logical control of gene expression
Yaakov Benenson, Binyamin Gil, Uri Ben-Dor, Rivka Adar and Ehud Shapiro Nature429, 423–429
(27 May 2004); doi:10.1038/nature02551
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news and views Automata make antisense
Anne Condon Nature429, 351–352
(27 May 2004); doi:10.1038/429351a
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letter Gene regulatory network growth by duplication
Sarah A Teichmann and M Madan Babu Nature Genetics36, 492–496
(May 2004); doi:10.1038/ng1340
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perspectives Proteomics in postgenomic neuroscience: the end of the beginning
Jyoti Choudhary and Seth G N Grant Nature Neuroscience7, 440–445
(May 2004); doi:10.1038/nn1240
| Abstract | Full Text (HTML/PDF) |
letters to nature Integrating high-throughput and computational data elucidates bacterial networks
Markus W. Covert, Eric M. Knight, Jennifer L. Reed, Markus J. Herrgard and Bernhard O. Palsson Nature429, 92–96
(06 May 2004); doi:10.1038/nature02456
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letter Just-in-time transcription program in metabolic pathways
Alon Zaslaver, Avi E Mayo, Revital Rosenberg, Pnina Bashkin, Hila Sberro, Miri Tsalyuk, Michael G Surette and Uri Alon Nature Genetics36, 486–491
(May 2004); doi:10.1038/ng1348
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April
perspectives Science and society: Shaping science policy in the age of genomics
Richard R. Sharp, Michael A. Yudell and Samuel H. Wilson Nature Reviews Genetics5, 311–315
(April 2004); doi:10.1038/nrg1320
| Abstract | Full Text (HTML / PDF) |
news and views Unshackling expression profiling arrays
Darrell P Chandler Nature Biotechnology22, 396–397
(April 2004); doi:10.1038/nbt0404-396
| Full Text (HTML/PDF) |
letters to nature From molecular noise to behavioural variability in a single bacterium
Ekaterina Korobkova, Thierry Emonet, Jose M. G. Vilar, Thomas S. Shimizu and Philippe Cluzel Nature428, 574–578
(01 April 2004); doi:10.1038/nature02404
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review article Chemogenomics: an emerging strategy for rapid target and drug discovery
Markus Bredel and Edgar Jacoby Nature Reviews Genetics5, 262–275
(April 2004)
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research article Expression profiling using a hexamer-based universal microarray
Matthew E Roth, Li Feng, Kevin J McConnell, Paul J Schaffer, Cesar E Guerra, Jason P Affourtit, Kevin R Piper, Lorri Guccione, Jayashree Hariharan, Maura J Ford, Stephen W Powell, Harish Krishnaswamy, Jennifer Lane, Lisa Guccione, Gino Intrieri, Jane S Merkel, Clotilde Perbost, Anthony Valerio, Brenda Zolla, Carol D Graham, Jonathan Hnath, Chris Michaelson, Rixin Wang, Baoge Ying, Conrad Halling, Craig E Parman, Debasish Raha, Brent Orr, Barbara Jedrzkiewicz, Ji Liao, Anton Tevelev, Martin J Mattessich, David M Kranz, Michelle Lacey, Joseph C Kaufman, Junhyong Kim, Darin R Latimer and Paul M Lizardi Nature Biotechnology22, 418–426
(April 2004); doi:10.1038/nbt948
| Abstract | Full Text (HTML/PDF) |
March
review article A census of human cancer genes
P. Andrew Futreal, Lachlan Coin, Mhairi Marshall, Thomas Down, Timothy Hubbard, Richard Wooster, Nazneen Rahman and Michael R. Stratton Nature Reviews Cancer4, 177–183
(March 2004); doi:10.1038/nrc1299
| Abstract | Full Text (HTML / PDF) |
letter Gene expression-based high-throughput screening(GE-HTS) and application to leukemia differentiation
Kimberly Stegmaier, Kenneth N Ross, Sierra A Colavito, Shawn O'Malley, Brent R Stockwell and Todd R Golub Nature Genetics36, 257–263
(March 2004); doi:10.1038/ng1305
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news and views Gene expression as a drug discovery tool
William E Evans and R Kip Guy Nature Genetics36, 214–215
(March 2004); doi:10.1038/ng0304-214
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