Cited by ..

Celsius: a community resource for Affymetrix microarray data

Allen Day, Marc RJ Carlson, Jun Dong, Brian D O'Connor, Stanley F Nelson

Genome Biol. 2007; 8(6): R112. Published online 2007 June 14. doi: 10.1186/gb-2007-8-6-r112

PMCID:: PMC2394754

Abstract Full Text PDF–583K Supplementary Material

Is Cited by the Following 23 Articles in this Archive:

Exome Sequencing Identifies CCDC8 Mutations in 3-M Syndrome, Suggesting that CCDC8 Contributes in a Pathway with CUL7 and OBSL1 to Control Human Growth

Dan Hanson, Philip G. Murray, James O'Sullivan, Jill Urquhart, Sarah Daly, Sanjeev S. Bhaskar, Leslie G. Biesecker, Mars Skae, Claire Smith, Trevor Cole, Jeremy Kirk, Kate Chandler, Helen Kingston, Dian Donnai, Peter E. Clayton, Graeme C.M. Black

Am J Hum Genet. 2011 July 15; 89(1): 148–153. doi: 10.1016/j.ajhg.2011.05.028

PMCID:: PMC3135816

Abstract Full Text PDF–784K Supplementary Material

Alignment of gene expression profiles from test samples against a reference database: New method for context-specific interpretation of microarray data

Sami K Kilpinen, Kalle A Ojala, Olli P Kallioniemi

BioData Min. 2011; 4: 5. Published online 2011 March 31. doi: 10.1186/1756-0381-4-5

PMCID:: PMC3080808

Abstract Full Text PDF–3.5M Supplementary Material

Fibrochondrogenesis Results from Mutations in the COL11A1 Type XI Collagen Gene

Stuart W. Tompson, Carlos A. Bacino, Nicole P. Safina, Michael B. Bober, Virginia K. Proud, Tara Funari, Michael F. Wangler, Lisette Nevarez, Leena Ala-Kokko, William R. Wilcox, David R. Eyre, Deborah Krakow, Daniel H. Cohn

Am J Hum Genet. 2010 November 12; 87(5): 708–712. doi: 10.1016/j.ajhg.2010.10.009

PMCID:: PMC2978944

Abstract Full Text PDF–487K

The GMOD Drupal Bioinformatic Server Framework

Alexie Papanicolaou, David G. Heckel

Bioinformatics. 2010 December 15; 26(24): 3119–3124. Published online 2010 October 22. doi: 10.1093/bioinformatics/btq599

PMCID:: PMC2995126

Abstract Full Text PDF–197K

Microarray meta-analysis database (M²DB): a uniformly pre-processed, quality controlled, and manually curated human clinical microarray database

Wei-Chung Cheng, Min-Lung Tsai, Cheng-Wei Chang, Ching-Lung Huang, Chaang-Ray Chen, Wun-Yi Shu, Yun-Shien Lee, Tzu-Hao Wang, Ji-Hong Hong, Chia-Yang Li, Ian C Hsu

BMC Bioinformatics. 2010; 11: 421. Published online 2010 August 10. doi: 10.1186/1471-2105-11-421

PMCID:: PMC2928207

Abstract Full Text PDF–992K Supplementary Material

Divergence of human and mouse brain transcriptome highlights Alzheimer disease pathways

Jeremy A. Miller, Steve Horvath, Daniel H. Geschwind

Proc Natl Acad Sci U S A. 2010 July 13; 107(28): 12698–12703. Published online 2010 June 25. doi: 10.1073/pnas.0914257107

PMCID:: PMC2906579

Abstract Full Text PDF–719K Supplementary Material

A Quick Guide to Large-Scale Genomic Data Mining

Curtis Huttenhower, Oliver Hofmann

PLoS Comput Biol. 2010 May; 6(5): e1000779. Published online 2010 May 27. doi: 10.1371/journal.pcbi.1000779

PMCID:: PMC2877728

Full Text PDF–882K Supplementary Material

A global map of human gene expression

Margus Lukk, Misha Kapushesky, Janne Nikkilä, Helen Parkinson, Angela Goncalves, Wolfgang Huber, Esko Ukkonen, Alvis Brazma

Nat Biotechnol. Author manuscript; available in PMC 2010 November 5.

Published in final edited form as: Nat Biotechnol. 2010 April; 28(4): 322–324. doi: 10.1038/nbt0410-322

PMCID:: PMC2974261

Full Text PDF–102K Supplementary Material

Disease Gene Characterization through Large-Scale Co-Expression Analysis

Allen Day, Jun Dong, Vincent A. Funari, Bret Harry, Samuel P. Strom, Dan H. Cohn, Stanley F. Nelson

PLoS One. 2009; 4(12): e8491. Published online 2009 December 31. doi: 10.1371/journal.pone.0008491

PMCID:: PMC2797297

Abstract Full Text PDF–419K Supplementary Material

Identification of Mutations in TRAPPC9, which Encodes the NIK- and IKK-β-Binding Protein, in Nonsyndromic Autosomal-Recessive Mental Retardation

Asif Mir, Liana Kaufman, Abdul Noor, Mahdi M. Motazacker, Talal Jamil, Matloob Azam, Kimia Kahrizi, Muhammad Arshad Rafiq, Rosanna Weksberg, Tanveer Nasr, Farooq Naeem, Andreas Tzschach, Andreas W. Kuss, Gisele E. Ishak, Dan Doherty, H. Hilger Ropers, A. James Barkovich, Hossein Najmabadi, Muhammad Ayub, John B. Vincent

Am J Hum Genet. 2009 December 11; 85(6): 909–915. doi: 10.1016/j.ajhg.2009.11.009

PMCID:: PMC2790571

Abstract Full Text PDF–650K Supplementary Material

Genomic landscape of meningiomas

Yohan Lee, Jason Liu, Shilpa Patel, Timothy Cloughesy, Albert Lai, Haumith Farooqi, David Seligson, Jun Dong, Linda Liau, Donald Becker, Paul Mischel, Soheil Shams, Stanley Nelson

Brain Pathol. Author manuscript; available in PMC 2011 September 6.

Published in final edited form as: Brain Pathol. 2010 July; 20(4): 751–762. Published online 2009 November 20. doi: 10.1111/j.1750-3639.2009.00356.x

PMCID:: PMC3167483

Abstract Full Text PDF–1.0M Supplementary Material

Conserved Expression Patterns Predict microRNA Targets

William Ritchie, Megha Rajasekhar, Stephane Flamant, John E. J. Rasko

PLoS Comput Biol. 2009 September; 5(9): e1000513. Published online 2009 September 25. doi: 10.1371/journal.pcbi.1000513

PMCID:: PMC2736581

Abstract Full Text PDF–292K Supplementary Material

The organization of the transcriptional network in specific neuronal classes

Kellen D Winden, Michael C Oldham, Karoly Mirnics, Philip J Ebert, Christo H Swan, Pat Levitt, John L Rubenstein, Steve Horvath, Daniel H Geschwind

Mol Syst Biol. 2009; 5: 291. Published online 2009 July 28. doi: 10.1038/msb.2009.46

PMCID:: PMC2724976

Abstract Full Text PDF–5.8M Supplementary Material

Construction and use of gene expression covariation matrix

Jérôme Hennetin, Petri Pehkonen, Michel Bellis

BMC Bioinformatics. 2009; 10: 214. Published online 2009 July 13. doi: 10.1186/1471-2105-10-214

PMCID:: PMC2720390

Abstract Full Text PDF–1019K Supplementary Material

SiPaGene: A new repository for instant online retrieval, sharing and meta-analyses of GeneChip^®expression data

Adriane Menßen, Götz Edinger, Joachim R Grün, Ulrike Haase, Ria Baumgrass, Andreas Grützkau, Andreas Radbruch, Gerd-R Burmester, Thomas Häupl

BMC Genomics. 2009; 10: 98. Published online 2009 March 5. doi: 10.1186/1471-2164-10-98

PMCID:: PMC2657156

Abstract Full Text PDF–3.2M

Comparison of Affymetrix data normalization methods using 6,926 experiments across five array generations

Reija Autio, Sami Kilpinen, Matti Saarela, Olli Kallioniemi, Sampsa Hautaniemi, Jaakko Astola

BMC Bioinformatics. 2009; 10(Suppl 1): S24. Published online 2009 January 30. doi: 10.1186/1471-2105-10-S1-S24

PMCID:: PMC2648747

Abstract Full Text PDF–998K

EMAAS: An extensible grid-based Rich Internet Application for microarray data analysis and management

G Barton, J Abbott, N Chiba, DW Huang, Y Huang, M Krznaric, J Mack-Smith, A Saleem, BT Sherman, B Tiwari, C Tomlinson, T Aitman, J Darlington, L Game, MJE Sternberg, SA Butcher

BMC Bioinformatics. 2008; 9: 493. Published online 2008 November 25. doi: 10.1186/1471-2105-9-493

PMCID:: PMC2615452

Abstract Full Text PDF–1.5M

Boolean implication networks derived from large scale, whole genome microarray datasets

Debashis Sahoo, David L Dill, Andrew J Gentles, Robert Tibshirani, Sylvia K Plevritis

Genome Biol. 2008; 9(10): R157. Published online 2008 October 30. doi: 10.1186/gb-2008-9-10-r157

PMCID:: PMC2760884

Abstract Full Text PDF–5.0M Supplementary Material

Gene expression analysis of glioblastomas identifies the major molecular basis for the prognostic benefit of younger age

Yohan Lee, Adrienne C Scheck, Timothy F Cloughesy, Albert Lai, Jun Dong, Haumith K Farooqi, Linda M Liau, Steve Horvath, Paul S Mischel, Stanley F Nelson

BMC Med Genomics. 2008; 1: 52. Published online 2008 October 21. doi: 10.1186/1755-8794-1-52

PMCID:: PMC2596165

Abstract Full Text PDF–488K Supplementary Material

Systematic bioinformatic analysis of expression levels of 17,330 human genes across 9,783 samples from 175 types of healthy and pathological tissues

Sami Kilpinen, Reija Autio, Kalle Ojala, Kristiina Iljin, Elmar Bucher, Henri Sara, Tommi Pisto, Matti Saarela, Rolf I Skotheim, Mari Björkman, John-Patrick Mpindi, Saija Haapa-Paananen, Paula Vainio, Henrik Edgren, Maija Wolf, Jaakko Astola, Matthias Nees, Sampsa Hautaniemi, Olli Kallioniemi

Genome Biol. 2008; 9(9): R139. Published online 2008 September 19. doi: 10.1186/gb-2008-9-9-r139

PMCID:: PMC2592717

Abstract Full Text PDF–2.2M Supplementary Material

MiMiR – an integrated platform for microarray data sharing, mining and analysis

Chris Tomlinson, Manjula Thimma, Stelios Alexandrakis, Tito Castillo, Jayne L Dennis, Anthony Brooks, Thomas Bradley, Carly Turnbull, Ekaterini Blaveri, Geraint Barton, Norie Chiba, Klio Maratou, Pat Soutter, Tim Aitman, Laurence Game

BMC Bioinformatics. 2008; 9: 379. Published online 2008 September 18. doi: 10.1186/1471-2105-9-379