Literature DB >> 34902132

Integration of DNA Microarray with Clinical and Genomic Data.

Francesca Scionti1, Mariamena Arbitrio2, Daniele Caracciolo3, Licia Pensabene4, Pierfrancesco Tassone3, Pierosandro Tagliaferri3, Maria Teresa Di Martino5.   

Abstract

DNA microarrays have been widely employed to understand cancer development. This technology is able to measure expression levels of a large numbers of genes or to genotype multiple regions of a genome in a massively parallel experiment. In addition, the detection of methylation patterns and gene copy number variations are also performed. Clinicians began to apply these findings in personalized medicine for the selection of cancer therapy according to the individual's cancer genomic profile. Because cancer is a complex disease it is of great value to integrate microarray data with genomic and clinical data. Here, we presented an overview of DNA microarray technology and discuss about benefits and challenging of microarray data integration.
© 2022. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.

Entities:  

Keywords:  DNA microarray; Integration of omics data; Personalized medicine

Mesh：

Year:  2022        PMID： 34902132     DOI： 10.1007/978-1-0716-1839-4_15

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  26 in total

Review 1.  Detection of DNA copy number alterations in cancer by array comparative genomic hybridization.

Authors:  Evi Michels; Katleen De Preter; Nadine Van Roy; Frank Speleman
Journal:  Genet Med       Date:  2007-09       Impact factor: 8.822

2.  Identification of the potential prognostic genes of human melanoma.

Authors:  Bing Wang; Xing-Long Qu; Yong Chen
Journal:  J Cell Physiol       Date:  2018-11-30       Impact factor: 6.384

3.  Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications.

Authors:  T Sørlie; C M Perou; R Tibshirani; T Aas; S Geisler; H Johnsen; T Hastie; M B Eisen; M van de Rijn; S S Jeffrey; T Thorsen; H Quist; J C Matese; P O Brown; D Botstein; P E Lønning; A L Børresen-Dale
Journal:  Proc Natl Acad Sci U S A       Date:  2001-09-11       Impact factor: 11.205

4.  Molecular portraits of human breast tumours.

Authors:  C M Perou; T Sørlie; M B Eisen; M van de Rijn; S S Jeffrey; C A Rees; J R Pollack; D T Ross; H Johnsen; L A Akslen; O Fluge; A Pergamenschikov; C Williams; S X Zhu; P E Lønning; A L Børresen-Dale; P O Brown; D Botstein
Journal:  Nature       Date:  2000-08-17       Impact factor: 49.962

5.  Quality and concordance of genotyping array data of 12,064 samples from 5840 cancer patients.

Authors:  Mingsheng Guo; Wei Yue; David C Samuels; Hui Yu; Jing He; Ying-Yong Zhao; Yan Guo
Journal:  Genomics       Date:  2018-06-11       Impact factor: 5.736

6.  Genome-wide association study of renal cell carcinoma identifies two susceptibility loci on 2p21 and 11q13.3.

Authors:  Mark P Purdue; Mattias Johansson; Diana Zelenika; Jorge R Toro; Ghislaine Scelo; Lee E Moore; Egor Prokhortchouk; Xifeng Wu; Lambertus A Kiemeney; Valerie Gaborieau; Kevin B Jacobs; Wong-Ho Chow; David Zaridze; Vsevolod Matveev; Jan Lubinski; Joanna Trubicka; Neonila Szeszenia-Dabrowska; Jolanta Lissowska; Péter Rudnai; Eleonora Fabianova; Alexandru Bucur; Vladimir Bencko; Lenka Foretova; Vladimir Janout; Paolo Boffetta; Joanne S Colt; Faith G Davis; Kendra L Schwartz; Rosamonde E Banks; Peter J Selby; Patricia Harnden; Christine D Berg; Ann W Hsing; Robert L Grubb; Heiner Boeing; Paolo Vineis; Françoise Clavel-Chapelon; Domenico Palli; Rosario Tumino; Vittorio Krogh; Salvatore Panico; Eric J Duell; José Ramón Quirós; Maria-José Sanchez; Carmen Navarro; Eva Ardanaz; Miren Dorronsoro; Kay-Tee Khaw; Naomi E Allen; H Bas Bueno-de-Mesquita; Petra H M Peeters; Dimitrios Trichopoulos; Jakob Linseisen; Börje Ljungberg; Kim Overvad; Anne Tjønneland; Isabelle Romieu; Elio Riboli; Anush Mukeria; Oxana Shangina; Victoria L Stevens; Michael J Thun; W Ryan Diver; Susan M Gapstur; Paul D Pharoah; Douglas F Easton; Demetrius Albanes; Stephanie J Weinstein; Jarmo Virtamo; Lars Vatten; Kristian Hveem; Inger Njølstad; Grethe S Tell; Camilla Stoltenberg; Rajiv Kumar; Kvetoslava Koppova; Olivier Cussenot; Simone Benhamou; Egbert Oosterwijk; Sita H Vermeulen; Katja K H Aben; Saskia L van der Marel; Yuanqing Ye; Christopher G Wood; Xia Pu; Alexander M Mazur; Eugenia S Boulygina; Nikolai N Chekanov; Mario Foglio; Doris Lechner; Ivo Gut; Simon Heath; Hélène Blanche; Amy Hutchinson; Gilles Thomas; Zhaoming Wang; Meredith Yeager; Joseph F Fraumeni; Konstantin G Skryabin; James D McKay; Nathaniel Rothman; Stephen J Chanock; Mark Lathrop; Paul Brennan
Journal:  Nat Genet       Date:  2010-12-05       Impact factor: 38.330

Review 7.  DNA methylation methods: Global DNA methylation and methylomic analyses.

Authors:  Shizhao Li; Trygve O Tollefsbol
Journal:  Methods       Date:  2020-10-09       Impact factor: 3.608

8.  Genome-wide association study in BRCA1 mutation carriers identifies novel loci associated with breast and ovarian cancer risk.

Authors:  Fergus J Couch; Xianshu Wang; Lesley McGuffog; Andrew Lee; Curtis Olswold; Karoline B Kuchenbaecker; Penny Soucy; Zachary Fredericksen; Daniel Barrowdale; Joe Dennis; Mia M Gaudet; Ed Dicks; Matthew Kosel; Sue Healey; Olga M Sinilnikova; Adam Lee; François Bacot; Daniel Vincent; Frans B L Hogervorst; Susan Peock; Dominique Stoppa-Lyonnet; Anna Jakubowska; Paolo Radice; Rita Katharina Schmutzler; Susan M Domchek; Marion Piedmonte; Christian F Singer; Eitan Friedman; Mads Thomassen; Thomas V O Hansen; Susan L Neuhausen; Csilla I Szabo; Ignacio Blanco; Mark H Greene; Beth Y Karlan; Judy Garber; Catherine M Phelan; Jeffrey N Weitzel; Marco Montagna; Edith Olah; Irene L Andrulis; Andrew K Godwin; Drakoulis Yannoukakos; David E Goldgar; Trinidad Caldes; Heli Nevanlinna; Ana Osorio; Mary Beth Terry; Mary B Daly; Elizabeth J van Rensburg; Ute Hamann; Susan J Ramus; Amanda Ewart Toland; Maria A Caligo; Olufunmilayo I Olopade; Nadine Tung; Kathleen Claes; Mary S Beattie; Melissa C Southey; Evgeny N Imyanitov; Marc Tischkowitz; Ramunas Janavicius; Esther M John; Ava Kwong; Orland Diez; Judith Balmaña; Rosa B Barkardottir; Banu K Arun; Gad Rennert; Soo-Hwang Teo; Patricia A Ganz; Ian Campbell; Annemarie H van der Hout; Carolien H M van Deurzen; Caroline Seynaeve; Encarna B Gómez Garcia; Flora E van Leeuwen; Hanne E J Meijers-Heijboer; Johannes J P Gille; Margreet G E M Ausems; Marinus J Blok; Marjolijn J L Ligtenberg; Matti A Rookus; Peter Devilee; Senno Verhoef; Theo A M van Os; Juul T Wijnen; Debra Frost; Steve Ellis; Elena Fineberg; Radka Platte; D Gareth Evans; Louise Izatt; Rosalind A Eeles; Julian Adlard; Diana M Eccles; Jackie Cook; Carole Brewer; Fiona Douglas; Shirley Hodgson; Patrick J Morrison; Lucy E Side; Alan Donaldson; Catherine Houghton; Mark T Rogers; Huw Dorkins; Jacqueline Eason; Helen Gregory; Emma McCann; Alex Murray; Alain Calender; Agnès Hardouin; Pascaline Berthet; Capucine Delnatte; Catherine Nogues; Christine Lasset; Claude Houdayer; Dominique Leroux; Etienne Rouleau; Fabienne Prieur; Francesca Damiola; Hagay Sobol; Isabelle Coupier; Laurence Venat-Bouvet; Laurent Castera; Marion Gauthier-Villars; Mélanie Léoné; Pascal Pujol; Sylvie Mazoyer; Yves-Jean Bignon; Elżbieta Złowocka-Perłowska; Jacek Gronwald; Jan Lubinski; Katarzyna Durda; Katarzyna Jaworska; Tomasz Huzarski; Amanda B Spurdle; Alessandra Viel; Bernard Peissel; Bernardo Bonanni; Giulia Melloni; Laura Ottini; Laura Papi; Liliana Varesco; Maria Grazia Tibiletti; Paolo Peterlongo; Sara Volorio; Siranoush Manoukian; Valeria Pensotti; Norbert Arnold; Christoph Engel; Helmut Deissler; Dorothea Gadzicki; Andrea Gehrig; Karin Kast; Kerstin Rhiem; Alfons Meindl; Dieter Niederacher; Nina Ditsch; Hansjoerg Plendl; Sabine Preisler-Adams; Stefanie Engert; Christian Sutter; Raymonda Varon-Mateeva; Barbara Wappenschmidt; Bernhard H F Weber; Brita Arver; Marie Stenmark-Askmalm; Niklas Loman; Richard Rosenquist; Zakaria Einbeigi; Katherine L Nathanson; Timothy R Rebbeck; Stephanie V Blank; David E Cohn; Gustavo C Rodriguez; Laurie Small; Michael Friedlander; Victoria L Bae-Jump; Anneliese Fink-Retter; Christine Rappaport; Daphne Gschwantler-Kaulich; Georg Pfeiler; Muy-Kheng Tea; Noralane M Lindor; Bella Kaufman; Shani Shimon Paluch; Yael Laitman; Anne-Bine Skytte; Anne-Marie Gerdes; Inge Sokilde Pedersen; Sanne Traasdahl Moeller; Torben A Kruse; Uffe Birk Jensen; Joseph Vijai; Kara Sarrel; Mark Robson; Noah Kauff; Anna Marie Mulligan; Gord Glendon; Hilmi Ozcelik; Bent Ejlertsen; Finn C Nielsen; Lars Jønson; Mette K Andersen; Yuan Chun Ding; Linda Steele; Lenka Foretova; Alex Teulé; Conxi Lazaro; Joan Brunet; Miquel Angel Pujana; Phuong L Mai; Jennifer T Loud; Christine Walsh; Jenny Lester; Sandra Orsulic; Steven A Narod; Josef Herzog; Sharon R Sand; Silvia Tognazzo; Simona Agata; Tibor Vaszko; Joellen Weaver; Alexandra V Stavropoulou; Saundra S Buys; Atocha Romero; Miguel de la Hoya; Kristiina Aittomäki; Taru A Muranen; Mercedes Duran; Wendy K Chung; Adriana Lasa; Cecilia M Dorfling; Alexander Miron; Javier Benitez; Leigha Senter; Dezheng Huo; Salina B Chan; Anna P Sokolenko; Jocelyne Chiquette; Laima Tihomirova; Tara M Friebel; Bjarni A Agnarsson; Karen H Lu; Flavio Lejbkowicz; Paul A James; Per Hall; Alison M Dunning; Daniel Tessier; Julie Cunningham; Susan L Slager; Chen Wang; Steven Hart; Kristen Stevens; Jacques Simard; Tomi Pastinen; Vernon S Pankratz; Kenneth Offit; Douglas F Easton; Georgia Chenevix-Trench; Antonis C Antoniou
Journal:  PLoS Genet       Date:  2013-03-27       Impact factor: 5.917

9.  Genome-wide association study identifies three new melanoma susceptibility loci.

Authors:  Jennifer H Barrett; Mark M Iles; Mark Harland; John C Taylor; Joanne F Aitken; Per Arne Andresen; Lars A Akslen; Bruce K Armstrong; Marie-Francoise Avril; Esther Azizi; Bert Bakker; Wilma Bergman; Giovanna Bianchi-Scarrà; Brigitte Bressac-de Paillerets; Donato Calista; Lisa A Cannon-Albright; Eve Corda; Anne E Cust; Tadeusz Dębniak; David Duffy; Alison M Dunning; Douglas F Easton; Eitan Friedman; Pilar Galan; Paola Ghiorzo; Graham G Giles; Johan Hansson; Marko Hocevar; Veronica Höiom; John L Hopper; Christian Ingvar; Bart Janssen; Mark A Jenkins; Göran Jönsson; Richard F Kefford; Giorgio Landi; Maria Teresa Landi; Julie Lang; Jan Lubiński; Rona Mackie; Josep Malvehy; Nicholas G Martin; Anders Molven; Grant W Montgomery; Frans A van Nieuwpoort; Srdjan Novakovic; Håkan Olsson; Lorenza Pastorino; Susana Puig; Joan Anton Puig-Butille; Juliette Randerson-Moor; Helen Snowden; Rainer Tuominen; Patricia Van Belle; Nienke van der Stoep; David C Whiteman; Diana Zelenika; Jiali Han; Shenying Fang; Jeffrey E Lee; Qingyi Wei; G Mark Lathrop; Elizabeth M Gillanders; Kevin M Brown; Alisa M Goldstein; Peter A Kanetsky; Graham J Mann; Stuart Macgregor; David E Elder; Christopher I Amos; Nicholas K Hayward; Nelleke A Gruis; Florence Demenais; Julia A Newton Bishop; D Timothy Bishop
Journal:  Nat Genet       Date:  2011-10-09       Impact factor: 38.330

10.  Five candidate biomarkers associated with the diagnosis and prognosis of cervical cancer.

Authors:  Hong-Yan Han; Jiang-Tao Mou; Wen-Ping Jiang; Xiu-Ming Zhai; Kun Deng
Journal:  Biosci Rep       Date:  2021-03-26       Impact factor: 3.840
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