Cited by ..

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

Is Cited by the Following 37 Articles in this Archive:

CD44 Expression in Oro-Pharyngeal Carcinoma Tissues and Cell Lines

Abirami Rajarajan, Angela Stokes, Balvinder K. Bloor, Rebecca Ceder, Hemini Desai, Roland C. Grafström, Edward W. Odell

PLoS One. 2012; 7(1): e28776. Published online 2012 January 5. doi: 10.1371/journal.pone.0028776

PMCID:: PMC3252301

Abstract Full Text PDF–1.6M

Identification of proprotein convertase substrates using genome-wide expression correlation analysis

Hannu Turpeinen, Sampo Kukkurainen, Kati Pulkkinen, Timo Kauppila, Kalle Ojala, Vesa P Hytönen, Marko Pesu

BMC Genomics. 2011; 12: 618. Published online 2011 December 20. doi: 10.1186/1471-2164-12-618

PMCID:: PMC3258279

Abstract Full Text PDF–2.2M Supplementary Material

Membrane-Type-3 Matrix Metalloproteinase (MT3-MMP) Functions as a Matrix Composition-Dependent Effector of Melanoma Cell Invasion

Olga Tatti, Mariliina Arjama, Annamari Ranki, Stephen J. Weiss, Jorma Keski-Oja, Kaisa Lehti

PLoS One. 2011; 6(12): e28325. Published online 2011 December 2. doi: 10.1371/journal.pone.0028325

PMCID:: PMC3229567

Abstract Full Text PDF–819K Supplementary Material

Pancreatic Cancer Susceptibility Loci and Their Role in Survival

Cosmeri Rizzato, Daniele Campa, Nathalia Giese, Jens Werner, P. Sivaramakrishna Rachakonda, Rajiv Kumar, Michaela Schanné, William Greenhalf, Eithne Costello, Kay-tee Khaw, Tim J. Key, Afshan Siddiq, Justo Lorenzo-Bermejo, Barbara Burwinkel, John P. Neoptolemos, Markus W. Büchler, Jörg D. Hoheisel, Andrea Bauer, Federico Canzian

PLoS One. 2011; 6(11): e27921. Published online 2011 November 18. doi: 10.1371/journal.pone.0027921

PMCID:: PMC3220706

Abstract Full Text PDF–93K Supplementary Material

Characterization of Non-Specific Cytotoxic Cell Receptor Protein 1: A New Member of the Lectin-Type Subfamily of F-Box Proteins

Heini Kallio, Martti Tolvanen, Janne Jänis, Pei-wen Pan, Eeva Laurila, Anne Kallioniemi, Sami Kilpinen, Vilppu J. Tuominen, Jorma Isola, Jarkko Valjakka, Silvia Pastorekova, Jaromir Pastorek, Seppo Parkkila

PLoS One. 2011; 6(11): e27152. Published online 2011 November 7. doi: 10.1371/journal.pone.0027152

PMCID:: PMC3210139

Abstract Full Text PDF–2.0M Supplementary Material

Contribution of ARLTS1 Cys148Arg (T442C) Variant with Prostate Cancer Risk and ARLTS1 Function in Prostate Cancer Cells

Sanna Siltanen, Tiina Wahlfors, Martin Schindler, Outi R. Saramäki, John Patrick Mpindi, Leena Latonen, Robert L. Vessella, Teuvo L. J. Tammela, Olli Kallioniemi, Tapio Visakorpi, Johanna Schleutker

PLoS One. 2011; 6(10): e26595. Published online 2011 October 20. doi: 10.1371/journal.pone.0026595

PMCID:: PMC3197657

Abstract Full Text PDF–359K Supplementary Material

Classification of unknown primary tumors with a data-driven method based on a large microarray reference database

Kalle A Ojala, Sami K Kilpinen, Olli P Kallioniemi

Genome Med. 2011; 3(9): 63. Published online 2011 October 17. doi: 10.1186/gm279

PMCID:: PMC3239238

Abstract Full Text PDF–575K Supplementary Material

SHARPIN is an endogenous inhibitor of beta1-integrin activation

Juha K. Rantala, Jeroen Pouwels, Teijo Pellinen, Stefan Veltel, Petra Laasola, Christopher S. Potter, Ted Duffy, John P. Sundberg, Olli Kallioniemi, Janet A. Askari, Martin Humphries, Maddy Parsons, Marko Salmi, Johanna Ivaska

Nat Cell Biol. Author manuscript; available in PMC 2012 January 13.

Published in final edited form as: Nat Cell Biol. 2011 September 25; 13(11): 1315–1324. doi: 10.1038/ncb2340

PMCID:: PMC3257806

Abstract Full Text PDF–3.4M Supplementary Material

LGI2 Truncation Causes a Remitting Focal Epilepsy in Dogs

Eija H. Seppälä, Tarja S. Jokinen, Masaki Fukata, Yuko Fukata, Matthew T. Webster, Elinor K. Karlsson, Sami K. Kilpinen, Frank Steffen, Elisabeth Dietschi, Tosso Leeb, Ranja Eklund, Xiaochu Zhao, Jennifer J. Rilstone, Kerstin Lindblad-Toh, Berge A. Minassian, Hannes Lohi

PLoS Genet. 2011 July; 7(7): e1002194. Published online 2011 July 28. doi: 10.1371/journal.pgen.1002194

PMCID:: PMC3145619

Abstract Full Text PDF–1.1M Supplementary Material

Expression cartography of human tissues using self organizing maps

Henry Wirth, Markus Löffler, Martin von Bergen, Hans Binder

BMC Bioinformatics. 2011; 12: 306. Published online 2011 July 27. doi: 10.1186/1471-2105-12-306

PMCID:: PMC3161046

Abstract Full Text PDF–7.9M Supplementary Material

Identification of an epigenetic biomarker panel with high sensitivity and specificity for colorectal cancer and adenomas

Guro E Lind, Stine A Danielsen, Terje Ahlquist, Marianne A Merok, Kim Andresen, Rolf I Skotheim, Merete Hektoen, Torleiv O Rognum, Gunn I Meling, Geir Hoff, Michael Bretthauer, Espen Thiis-Evensen, Arild Nesbakken, Ragnhild A Lothe

Mol Cancer. 2011; 10: 85. Published online 2011 July 21. doi: 10.1186/1476-4598-10-85

PMCID:: PMC3166273

Abstract Full Text PDF–994K Supplementary Material

A Compendium of Canine Normal Tissue Gene Expression

Joseph Briggs, Melissa Paoloni, Qing-Rong Chen, Xinyu Wen, Javed Khan, Chand Khanna

PLoS One. 2011; 6(5): e17107. Published online 2011 May 31. doi: 10.1371/journal.pone.0017107

PMCID:: PMC3104984

Abstract Full Text PDF–3.3M Supplementary Material

GENT: Gene Expression Database of Normal and Tumor Tissues

Gwangsik Shin, Tae-Wook Kang, Sungjin Yang, Su-Jin Baek, Yong-Su Jeong, Seon-Young Kim

Cancer Inform. 2011; 10: 149–157. Published online 2011 May 9. doi: 10.4137/CIN.S7226

PMCID:: PMC3118449

Abstract Full Text PDF–2.1M 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

A cell spot microarray method for production of high density siRNA transfection microarrays

Juha K Rantala, Rami Mäkelä, Anna-Riina Aaltola, Petra Laasola, John-Patrick Mpindi, Matthias Nees, Petri Saviranta, Olli Kallioniemi

BMC Genomics. 2011; 12: 162. Published online 2011 March 28. doi: 10.1186/1471-2164-12-162

PMCID:: PMC3073923

Abstract Full Text PDF–3.8M Supplementary Material

GTI: A Novel Algorithm for Identifying Outlier Gene Expression Profiles from Integrated Microarray Datasets

John Patrick Mpindi, Henri Sara, Saija Haapa-Paananen, Sami Kilpinen, Tommi Pisto, Elmar Bucher, Kalle Ojala, Kristiina Iljin, Paula Vainio, Mari Björkman, Santosh Gupta, Pekka Kohonen, Matthias Nees, Olli Kallioniemi

PLoS One. 2011; 6(2): e17259. Published online 2011 February 18. doi: 10.1371/journal.pone.0017259

Correction in:: PLoS One. 2011; 6(4): 10.1371/annotation/7d571883-faf0-4f66-86a2-806c36c4741c.

PMCID:: PMC3041823

Abstract Full Text PDF–1.5M Supplementary Material Correction

Arachidonic Acid Pathway Members PLA2G7, HPGD, EPHX2, and CYP4F8 Identified as Putative Novel Therapeutic Targets in Prostate Cancer

Paula Vainio, Santosh Gupta, Kirsi Ketola, Tuomas Mirtti, John-Patrick Mpindi, Pekka Kohonen, Vidal Fey, Merja Perälä, Frank Smit, Gerald Verhaegh, Jack Schalken, Kalle A. Alanen, Olli Kallioniemi, Kristiina Iljin

Am J Pathol. 2011 February; 178(2): 525–536. doi: 10.1016/j.ajpath.2010.10.002

PMCID:: PMC3128506

Abstract Full Text PDF–2.7M Supplementary Material

Identification of fusion genes in breast cancer by paired-end RNA-sequencing

Henrik Edgren, Astrid Murumagi, Sara Kangaspeska, Daniel Nicorici, Vesa Hongisto, Kristine Kleivi, Inga H Rye, Sandra Nyberg, Maija Wolf, Anne-Lise Borresen-Dale, Olli Kallioniemi

Genome Biol. 2011; 12(1): R6. Published online 2011 January 19. doi: 10.1186/gb-2011-12-1-r6

PMCID:: PMC3091304

Abstract Full Text PDF–1.9M Supplementary Material

The essential role of evasion from cell death in cancer

Gemma Kelly, Andreas Strasser

Adv Cancer Res. Author manuscript; available in PMC 2011 July 1.

Published in final edited form as: Adv Cancer Res. 2011; 111: 39–96. doi: 10.1016/B978-0-12-385524-4.00002-7

PMCID:: PMC3128425

Abstract Full Text PDF–1.3M

Analysis of Kinase Gene Expression Patterns across 5681 Human Tissue Samples Reveals Functional Genomic Taxonomy of the Kinome

Sami Kilpinen, Kalle Ojala, Olli Kallioniemi

PLoS One. 2010; 5(12): e15068. Published online 2010 December 3. doi: 10.1371/journal.pone.0015068

PMCID:: PMC2997066

Abstract Full Text PDF–1.5M Supplementary Material

Integrative Functional Genomics Analysis of Sustained Polyploidy Phenotypes in Breast Cancer Cells Identifies an Oncogenic Profile for GINS2

Juha K Rantala, Henrik Edgren, Laura Lehtinen, Maija Wolf, Kristine Kleivi, Hans Kristian Moen Vollan, Anna-Riina Aaltola, Petra Laasola, Sami Kilpinen, Petri Saviranta, Kristiina Iljin, Olli Kallioniemi

Neoplasia. 2010 November; 12(11): 877–888.

PMCID:: PMC2981730

Abstract Full Text PDF–4.1M Supplementary Material

The vent-like homeobox gene VENTX promotes human myeloid differentiation and is highly expressed in acute myeloid leukemia

Vijay P. S. Rawat, Natalia Arseni, Farid Ahmed, Medhanie A. Mulaw, Silvia Thoene, Bernhard Heilmeier, Tim Sadlon, Richard J. D'Andrea, Wolfgang Hiddemann, Stefan K. Bohlander, Christian Buske, Michaela Feuring-Buske

Proc Natl Acad Sci U S A. 2010 September 28; 107(39): 16946–16951. Published online 2010 September 10. doi: 10.1073/pnas.1001878107

PMCID:: PMC2947867

Abstract Full Text PDF–841K Supplementary Material

African signatures of recent positive selection in human FOXI1

Andrés Moreno-Estrada, Estel Aparicio-Prat, Martin Sikora, Johannes Engelken, Anna Ramírez-Soriano, Francesc Calafell, Elena Bosch

BMC Evol Biol. 2010; 10: 267. Published online 2010 September 1. doi: 10.1186/1471-2148-10-267

PMCID:: PMC2939579

Abstract Full Text PDF–1.2M Supplementary Material

LTR: Linear Cross-Platform Integration of Microarray Data

Paul C. Boutros

Cancer Inform. 2010; 9: 197–208. Published online 2010 August 27.

PMCID:: PMC2935818

Abstract Full Text PDF–4.5M

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

Addiction of MYCN Amplified Tumours to B-MYB Underscores a Reciprocal Regulatory Loop

Francesco Gualdrini, Daisy Corvetta, Sandra Cantilena, Olesya Chayka, Barbara Tanno, Giuseppe Raschellà, Arturo Sala

Oncotarget. 2010 August; 1(4): 278–288. Published online 2010 August 4.

PMCID:: PMC3248110

Abstract Full Text PDF–4.2M Supplementary Material

Array-based gene expression, CGH and tissue data defines a 12q24 gain in neuroblastic tumors with prognostic implication

Maija Wolf, Miikka Korja, Ritva Karhu, Henrik Edgren, Sami Kilpinen, Kalle Ojala, Spyro Mousses, Anne Kallioniemi, Hannu Haapasalo

BMC Cancer. 2010; 10: 181. Published online 2010 May 5. doi: 10.1186/1471-2407-10-181

PMCID:: PMC2873396

Abstract Full Text PDF–1.3M Supplementary Material

A Comprehensive Panel of Three-Dimensional Models for Studies of Prostate Cancer Growth, Invasion and Drug Responses

Ville Härmä, Johannes Virtanen, Rami Mäkelä, Antti Happonen, John-Patrick Mpindi, Matias Knuuttila, Pekka Kohonen, Jyrki Lötjönen, Olli Kallioniemi, Matthias Nees

PLoS One. 2010; 5(5): e10431. Published online 2010 May 3. doi: 10.1371/journal.pone.0010431