February 2008 Volume 5 Number 2, pp 115 - 207
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EDITORIAL
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Structural genomics in the spotlight p115
Structural genomics efforts have spurred the continuing development
of new methods and technologies, benefiting a broad community.
doi:10.1038/nmeth0208-115
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CORRESPONDENCE
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What ID is, beyond what it is not p117
Lee Turnpenny
doi:10.1038/nmeth0208-117a
http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQw0Es
Reannotation of array probes at NCBI's GEO database p117
Tanya Barrett and Ron Edgar
doi:10.1038/nmeth0208-117b
http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQx0Et
ALEXA: a microarray design platform for alternative expression
analysis p118
Malachi Griffith et al.
doi:10.1038/nmeth0208-118
http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQy0Eu
MAPAS: a tool for predicting membrane-contacting protein
surfaces p119
Yuriy Sharikov et al.
doi:10.1038/nmeth0208-119
http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQz0Ev
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RESEARCH HIGHLIGHTS
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Snapshots of mouse development p121
Natalie de Souza
doi:10.1038/nmeth0208-121
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQ10Ei
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQ20Ej
When microRNAs activate translation pp122 - 123
Nicole Rusk
doi:10.1038/nmeth0208-122a
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQ30Ek
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQ40El
Gathering a bouquet of miRNA targets pp122 - 123
Katherine Stevens
doi:10.1038/nmeth0208-122b
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQ50Em
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQ60En
News in brief p123
doi:10.1038/nmeth0208-123
http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQ70Eo
Microfluidics and a garden hose p124
Daniel Evanko
doi:10.1038/nmeth0208-124
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmQ80Ep
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRA0Ez
Another handle for RNA p126
Irene Kaganman
doi:10.1038/nmeth0208-126
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRB0E1
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRC0E2
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COMMENTARY
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Structural genomics: from genes to structures with valuable materials
and many questions in between pp129 - 132
Brian G Fox et al.
doi:10.1038/nmeth0208-129
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRD0E3
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRE0E4
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NEWS AND VIEWS
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How the sum of its parts gets greater than the whole pp133 - 134
A single biomolecule carries information that becomes lost in an
ensemble average. Methodological developments in imaging are now
making it easier to access this hidden information in a live-cell
context.
Mario Brameshuber and Gerhard J Schutz
doi:10.1038/nmeth0208-133
http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRF0E5
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REVIEW
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Protein production and purification pp135 - 146
Structural Genomics Consortium, Architecture et Fonction des
Macromolecules Biologiques, Berkeley Structural Genomics Center,
China Structural Genomics Consortium, Integrated Center for Structure
and Function Innovation, Israel Structural Proteomics Center,
Joint Center for Structural Genomics, Midwest Center for Structural
Genomics, New York Structural GenomiX Research Center for Structural
Genomics, Northeast Structural Genomics Consortium, Oxford Protein
Production Facility, Protein Sample Production Facility, Max Delbruck
Center for Molecular Medicine, RIKEN Structural Genomics/Proteomics
Initiative and SPINE2-Complexes
doi:10.1038/nmeth.f.202
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRH0E7
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRI0E8
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PERSPECTIVE
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Protein crystallization: from purified protein to diffraction-quality
crystal pp147 - 153
Naomi E Chayen and Emmanuel Saridakis
doi:10.1038/nmeth.f.203
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRJ0EA
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRK0EB
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BRIEF COMMUNICATIONS
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High-density mapping of single-molecule trajectories with
photoactivated localization microscopy pp155 - 157
Suliana Manley et al.
doi:10.1038/nmeth.1176
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRL0EC
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRM0ED
Highly inclined thin illumination enables clear single-molecule
imaging in cells pp159 - 161
Makio Tokunaga, Naoko Imamoto and Kumiko Sakata-Sogawa
doi:10.1038/nmeth1171
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRN0EE
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRO0EF
Epitope tagging of endogenous proteins for genome-wide ChIP-chip
studies pp163 - 165
Xiaodong Zhang et al.
doi:10.1038/nmeth1170
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRP0EG
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRQ0EH
Plasmid-chromosome shuffling for non-deletion alleles in
yeast pp167 - 169
Zhiwei Huang et al.
doi:10.1038/nmeth.1173
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRR0EI
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRS0EJ
A secreted luciferase for ex vivo monitoring of in vivo
processes pp171 - 173
Thomas Wurdinger et al.
doi:10.1038/nmeth.1177
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRT0EK
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRU0EL
Printing protein arrays from DNA arrays pp175 - 177
Mingyue He et al.
doi:10.1038/nmeth.1178
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRV0EM
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRW0EN
Pyrobayes: an improved base caller for SNP discovery in
pyrosequences pp179 - 181
Aaron R Quinlan, Donald A Stewart, Michael P Stromberg
and Gabor T Marth
doi:10.1038/nmeth.1172
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRX0EO
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRY0EP
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ARTICLES
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Whole-genome sequencing and variant discovery in
C. elegans pp183 - 188
LaDeana W Hillier et al.
doi:10.1038/nmeth.1179
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRZ0EQ
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRa0EX
Genetic manipulation of adult mouse neurogenic niches by in vivo
electroporation pp189 - 196
Fanie Barnabe-Heider et al.
doi:10.1038/nmeth.1174
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRb0EY
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRc0EZ
High-speed, low-photodamage nonlinear imaging using passive pulse
splitters pp197 - 202
Na Ji, Jeffrey C Magee and Eric Betzig
doi:10.1038/nmeth.1175
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRd0Ea
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRe0Eb
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TECHNOLOGY FEATURE
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Structural genomics: inside a protein structure initiative
center pp203 - 207
Nathan Blow visits the Joint Center for Structural Genomics for
a glimpse inside one of the large-scale production centers for
the Protein Structure Initiative.
Nathan Blow
doi:10.1038/nmeth0208-203
http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRf0Ec
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APPLICATION NOTES
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Finding new protein interactions using the DUALhunter system
Natalie Mockli, Anna Deplazes and Daniel Auerbach
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRg0Ed
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRh0Ee
MicroRNA quantitation from a single cell by PCR using SYBRreg
Green detection and LNA-based primers
Marie-Louise Lunn, Peter Mouritzen, Kirsten Faber and Nana Jacobsen
Abstract: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRi0Ef
Article: http://ealerts.nature.com/cgi-bin24/DM/y/eitV0Xztnp0Hi80BmRj0Eg
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