My NCBISign In
An integrated gene annotation and transcriptional profiling approach towards the full gene content of the Drosophila genome
M Hild, B Beckmann, SA Haas, B Koch, V Solovyev, C Busold, K Fellenberg, M Boutros, M Vingron, F Sauer, JD Hoheisel, R Paro
Genome Biol. 2004; 5(1): R3. Published online 2003 December 22. doi: 10.1186/gb-2003-5-1-r3
PMCID:
PMC395735
Abstract Full Text PDF–673K Supplementary Material

Is Cited by the Following 40 Articles in this Archive:

Tissue, cell type and stage-specific ectopic gene expression and RNAi induction in the Drosophila testis
Helen White-Cooper
Spermatogenesis. 2012 January 1; 2(1): 11–22. doi: 10.4161/spmg.19088
PMCID:
PMC3341242
Abstract Full Text PDF–1.0M
Hundreds of putatively functional small open reading frames in Drosophila
Emmanuel Ladoukakis, Vini Pereira, Emile G Magny, Adam Eyre-Walker, Juan Pablo Couso
Genome Biol. 2011; 12(11): R118. Published online 2011 November 25. doi: 10.1186/gb-2011-12-11-r118
PMCID:
PMC3334604
Abstract Full Text PDF–939K Supplementary Material
Copy-Number Variation: The Balance between Gene Dosage and Expression in Drosophila melanogaster
Jun Zhou, Bernardo Lemos, Erik B. Dopman, Daniel L. Hartl
Genome Biol Evol. 2011; 3: 1014–1024. Published online 2011 October 6. doi: 10.1093/gbe/evr023
PMCID:
PMC3227403
Abstract Full Text PDF–564K
The Developmental Transcriptome of Drosophila melanogaster
Brenton R. Graveley, Angela N. Brooks, Joseph W. Carlson, Michael O. Duff, Jane M. Landolin, Li Yang, Carlo G. Artieri, Marijke J. van Baren, Nathan Boley, Benjamin W. Booth, James B. Brown, Lucy Cherbas, Carrie A. Davis, Alex Dobin, Renhua Li, Wei Lin, John H. Malone, Nicolas R. Mattiuzzo, David Miller, David Sturgill, Brian B. Tuch, Chris Zaleski, Dayu Zhang, Marco Blanchette, Sandrine Dudoit, Brian Eads, Richard E. Green, Ann Hammonds, Lichun Jiang, Phil Kapranov, Laura Langton, Norbert Perrimon, Jeremy E. Sandler, Kenneth H. Wan, Aarron Willingham, Yu Zhang, Yi Zou, Justen Andrews, Peter J. Bickel, Steven E. Brenner, Michael R. Brent, Peter Cherbas, Thomas R. Gingeras, Roger A. Hoskins, Thomas C. Kaufman, Brian Oliver, Susan E. Celniker
Nature. Author manuscript; available in PMC 2011 September 24.
Published in final edited form as: Nature. 2011 March 24; 471(7339): 473–479. Published online 2010 December 22. doi: 10.1038/nature09715
PMCID:
PMC3075879
Abstract Full Text PDF–897K Supplementary Material
High-resolution transcription atlas of the mitotic cell cycle in budding yeast
Marina V Granovskaia, Lars J Jensen, Matthew E Ritchie, Joern Toedling, Ye Ning, Peer Bork, Wolfgang Huber, Lars M Steinmetz
Genome Biol. 2010; 11(3): R24. Published online 2010 March 1. doi: 10.1186/gb-2010-11-3-r24
PMCID:
PMC2864564
Abstract Full Text PDF–3.4M Supplementary Material
Gene networks in Drosophila melanogaster: integrating experimental data to predict gene function
James C Costello, Mehmet M Dalkilic, Scott M Beason, Jeff R Gehlhausen, Rupali Patwardhan, Sumit Middha, Brian D Eads, Justen R Andrews
Genome Biol. 2009; 10(9): R97. Published online 2009 September 16. doi: 10.1186/gb-2009-10-9-r97
PMCID:
PMC2768986
Abstract Full Text PDF–2.6M Supplementary Material
Evidence of a tick RNAi pathway by comparative genomics and reverse genetics screen of targets with known loss-of-function phenotypes in Drosophila
Sebastian Kurscheid, Ala E Lew-Tabor, Manuel Rodriguez Valle, Anthea G Bruyeres, Vivienne J Doogan, Ulrike G Munderloh, Felix D Guerrero, Roberto A Barrero, Matthew I Bellgard
BMC Mol Biol. 2009; 10: 26. Published online 2009 March 26. doi: 10.1186/1471-2199-10-26
PMCID:
PMC2676286
Abstract Full Text PDF–727K Supplementary Material
Accelerated sequence divergence of conserved genomic elements in Drosophila melanogaster
Alisha K. Holloway, David J. Begun, Adam Siepel, Katherine S. Pollard
Genome Res. 2008 October; 18(10): 1592–1601. doi: 10.1101/gr.077131.108
PMCID:
PMC2556263
Abstract Full Text PDF–433K
Dominance and the evolutionary accumulation of cis- and trans-effects on gene expression
Bernardo Lemos, Luciana O. Araripe, Pierre Fontanillas, Daniel L. Hartl
Proc Natl Acad Sci U S A. 2008 September 23; 105(38): 14471–14476. Published online 2008 September 12. doi: 10.1073/pnas.0805160105
PMCID:
PMC2567206
Abstract Full Text PDF–352K Supplementary Material
Proteomics Reveals Novel Drosophila Seminal Fluid Proteins Transferred at Mating
Geoffrey D Findlay, Xianhua Yi, Michael J MacCoss, Willie J Swanson
PLoS Biol. 2008 July; 6(7): e178. Published online 2008 July 29. doi: 10.1371/journal.pbio.0060178
Correction in:
PLoS Biol. 2009 June; 7(6): 10.1371/annotation/2177fe97-a5bc-45d5-8fa9-5c3639dda4f3.
PMCID:
PMC2486302
Abstract Full Text PDF–382K Supplementary Material Correction
Nucleosome organization in the Drosophila genome
Travis N. Mavrich, Cizhong Jiang, Ilya P. Ioshikhes, Xiaoyong Li, Bryan J. Venters, Sara J. Zanton, Lynn P. Tomsho, Ji Qi, Robert Glaser, Stephan C. Schuster, David S. Gilmour, Istvan Albert, B. Franklin Pugh
Nature. Author manuscript; available in PMC 2009 August 31.
Published in final edited form as: Nature. 2008 May 15; 453(7193): 358–362. Published online 2008 April 13. doi: 10.1038/nature06929
PMCID:
PMC2735122
Abstract Full Text PDF–3.0M Supplementary Material
Identification of novel modulators of mitochondrial function by a genome-wide RNAi screen in Drosophila melanogaster
Jian Chen, Xiaoying Shi, Ranjani Padmanabhan, Qiong Wang, Zhidan Wu, Susan C. Stevenson, Marc Hild, Dan Garza, Hao Li
Genome Res. 2008 January; 18(1): 123–136. doi: 10.1101/gr.6940108
PMCID:
PMC2134776
Abstract Full Text PDF–828K
Gene Family Evolution across 12 Drosophila Genomes
Matthew W Hahn, Mira V Han, Sang-Gook Han
PLoS Genet. 2007 November; 3(11): e197. Published online 2007 November 9. doi: 10.1371/journal.pgen.0030197
PMCID:
PMC2065885
Abstract Full Text PDF–271K Supplementary Material
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures
Alexander Stark, Michael F. Lin, Pouya Kheradpour, Jakob S. Pedersen, Leopold Parts, Joseph W. Carlson, Madeline A. Crosby, Matthew D. Rasmussen, Sushmita Roy, Ameya N. Deoras, J. Graham Ruby, Julius Brennecke, Harvard FlyBase curators, Berkeley Drosophila Genome Project, Emily Hodges, Angie S. Hinrichs, Anat Caspi, Benedict Paten, Seung-Won Park, Mira V. Han, Morgan L. Maeder, Benjamin J. Polansky, Bryanne E. Robson, Stein Aerts, Jacques van Helden, Bassem Hassan, Donald G. Gilbert, Deborah A. Eastman, Michael Rice, Michael Weir, Matthew W. Hahn, Yongkyu Park, Colin N. Dewey, Lior Pachter, W. James Kent, David Haussler, Eric C. Lai, David P. Bartel, Gregory J. Hannon, Thomas C. Kaufman, Michael B. Eisen, Andrew G. Clark, Douglas Smith, Susan E. Celniker, William M. Gelbart, Manolis Kellis
Nature. Author manuscript; available in PMC 2008 November 8.
Published in final edited form as: Nature. 2007 November 8; 450(7167): 219–232. doi: 10.1038/nature06340
PMCID:
PMC2474711
Abstract Full Text PDF–3.7M Supplementary Material
Drosophila TRP channels require a protein with a distinctive motif encoded by the inaF locus
Yuzhong Cheng, Howard A. Nash
Proc Natl Acad Sci U S A. 2007 November 6; 104(45): 17730–17734. Published online 2007 October 29. doi: 10.1073/pnas.0708368104
PMCID:
PMC2077074
Abstract Full Text PDF–540K Supplementary Material
Functional and evolutionary analysis of alternatively spliced genes is consistent with an early eukaryotic origin of alternative splicing
Manuel Irimia, Jakob Lewin Rukov, David Penny, Scott William Roy
BMC Evol Biol. 2007; 7: 188. Published online 2007 October 4. doi: 10.1186/1471-2148-7-188
PMCID:
PMC2082043
Abstract Full Text PDF–456K Supplementary Material
A case study of the reproducibility of transcriptional reporter cell-based RNAi screens in Drosophila
Ramanuj DasGupta, Kent Nybakken, Matthew Booker, Bernard Mathey-Prevot, Foster Gonsalves, Binita Changkakoty, Norbert Perrimon
Genome Biol. 2007; 8(9): R203. Published online 2007 September 28. doi: 10.1186/gb-2007-8-9-r203
PMCID:
PMC2375041
Abstract Full Text PDF–506K Supplementary Material
The Release 5.1 Annotation of Drosophila melanogaster Heterochromatin
Christopher D. Smith, ShengQiang Shu, Christopher J. Mungall, Gary H. Karpen
Science. Author manuscript; available in PMC 2010 February 10.
Published in final edited form as: Science. 2007 June 15; 316(5831): 1586. doi: 10.1126/science.1139815
PMCID:
PMC2819280
Abstract Full Text PDF–1.3M Supplementary Material
Principles of Genome Evolution in the Drosophila melanogaster Species Group
José M Ranz, Damien Maurin, Yuk S Chan, Marcin von Grotthuss, LaDeana W Hillier, John Roote, Michael Ashburner, Casey M Bergman
PLoS Biol. 2007 June; 5(6): e152. Published online 2007 June 5. doi: 10.1371/journal.pbio.0050152
PMCID:
PMC1885836
Abstract Full Text PDF–694K Supplementary Material
The Carnegie Protein Trap Library: A Versatile Tool for Drosophila Developmental Studies
Michael Buszczak, Shelley Paterno, Daniel Lighthouse, Julia Bachman, Jamie Planck, Stephenie Owen, Andrew D. Skora, Todd G. Nystul, Benjamin Ohlstein, Anna Allen, James E. Wilhelm, Terence D. Murphy, Robert W. Levis, Erika Matunis, Nahathai Srivali, Roger A. Hoskins, Allan C. Spradling
Genetics. 2007 March; 175(3): 1505–1531. doi: 10.1534/genetics.106.065961
PMCID:
PMC1840051
Abstract Full Text PDF–3.0M
Spatial organization of a ubiquitous eukaryotic kinetochore protein network in Drosophila chromosomes
Ralf B. Schittenhelm, Sebastian Heeger, Friederike Althoff, Anne Walter, Stefan Heidmann, Karl Mechtler, Christian F. Lehner
Chromosoma. 2007 August; 116(4): 385–402. Published online 2007 March 1. doi: 10.1007/s00412-007-0103-y
PMCID:
PMC1950589
Abstract Full Text PDF–711K
Applications of High-Throughput RNA Interference Screens to Problems in Cell and Developmental Biology
Norbert Perrimon, Bernard Mathey-Prevot
Genetics. 2007 January; 175(1): 7–16. doi: 10.1534/genetics.106.069963
PMCID:
PMC1775003
Abstract Full Text PDF–1.3M
Systematic interpretation of microarray data using experiment annotations
Kurt Fellenberg, Christian H Busold, Olaf Witt, Andrea Bauer, Boris Beckmann, Nicole C Hauser, Marcus Frohme, Stefan Winter, Jürgen Dippon, Jörg D Hoheisel
BMC Genomics. 2006; 7: 319. Published online 2006 December 20. doi: 10.1186/1471-2164-7-319
PMCID:
PMC1774576
Abstract Full Text PDF–406K Supplementary Material
GenomeRNAi: a database for cell-based RNAi phenotypes
Thomas Horn, Zeynep Arziman, Juerg Berger, Michael Boutros
Nucleic Acids Res. 2007 January; 35(Database issue): D492–D497. Published online 2006 November 28. doi: 10.1093/nar/gkl906
PMCID:
PMC1747177
Abstract Full Text PDF–474K
Sex-specific expression of alternative transcripts in Drosophila
Lauren M McIntyre, Lisa M Bono, Anne Genissel, Rick Westerman, Damion Junk, Marina Telonis-Scott, Larry Harshman, Marta L Wayne, Artyom Kopp, Sergey V Nuzhdin
Genome Biol. 2006; 7(8): R79. Published online 2006 August 25. doi: 10.1186/gb-2006-7-8-r79
PMCID:
PMC1779584
Abstract Full Text PDF–435K Supplementary Material
A genomewide screen for components of the RNAi pathway in Drosophila cultured cells
Silke Dorner, Lawrence Lum, Michelle Kim, Renato Paro, Philip A. Beachy, Rachel Green
Proc Natl Acad Sci U S A. 2006 August 8; 103(32): 11880–11885. Published online 2006 August 1. doi: 10.1073/pnas.0605210103
PMCID:
PMC1525048
Abstract Full Text PDF–604K Supplementary Material
FlyRNAi: the Drosophila RNAi screening center database
Ian Flockhart, Matthew Booker, Amy Kiger, Michael Boutros, Susan Armknecht, Nadire Ramadan, Kris Richardson, Andrew Xu, Norbert Perrimon, Bernard Mathey-Prevot
Nucleic Acids Res. 2006 January 1; 34(Database issue): D489–D494. Published online 2005 December 28. doi: 10.1093/nar/gkj114
PMCID:
PMC1347476
Abstract Full Text PDF–372K
EVOPRINTER, a multigenomic comparative tool for rapid identification of functionally important DNA
Ward F. Odenwald, Wayne Rasband, Alexander Kuzin, Thomas Brody
Proc Natl Acad Sci U S A. 2005 October 11; 102(41): 14700–14705. Published online 2005 October 3. doi: 10.1073/pnas.0506915102
PMCID:
PMC1239946
Abstract Full Text PDF–1.2M
An RNA interference screen identifies Inhibitor of Apoptosis Protein 2 as a regulator of innate immune signalling in Drosophila
Viola Gesellchen, David Kuttenkeuler, Michael Steckel, Nadège Pelte, Michael Boutros
EMBO Rep. 2005 October; 6(10): 979–984. Published online 2005 September 16. doi: 10.1038/sj.embor.7400530
PMCID:
PMC1369191
Abstract Full Text PDF–170K Supplementary Material
Canonical Wnt signaling: high-throughput RNAi widens the path
Anthony MC Brown
Genome Biol. 2005; 6(9): 231. Published online 2005 August 31. doi: 10.1186/gb-2005-6-9-231
PMCID:
PMC1242201
Abstract Full Text PDF–84K
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