Literature DB >> 22891496

Molecular genomic research designs.

Kelley Baumgartel1, Jamie Zelazny, Theresa Timcheck, Chantel Snyder, Mandy Bell, Yvette P Conley.   

Abstract

Genetic and genomic research approaches have the capability to expand our understanding of the complex pathophysiology of disease susceptibility, susceptibility to complications related to disease, trajectory of recovery from acquired injuries and infections, patient response to interventions and therapeutics, as well as informing diagnoses and prognoses. Nurse scientists are actively involved in all of these fields of inquiry, and the goal of this chapter is to assist with incorporation of genetic and genomic trajectories into their research and facilitate the design and execution of these studies. New studies that are going to embark on recruitment, phenotyping, and sample collection will benefit from forethought about research design to ensure that it addresses the research questions or hypotheses being tested. Studies that will use existing data or samples will also benefit from forethought about research design for the same reason but will also address the fact that some designs may not be feasible with the available data or samples. This chapter discusses candidate gene association, genome-wide association, candidate gene expression, global gene expression, and epigenetic/epigenomic study designs. Information provided includes rationale for selecting an appropriate study design, important methodology considerations for each design, key technologies available to accomplish each type of study, and online resources available to assist in executing each type of study design.

Entities:  

Mesh:

Year:  2011        PMID: 22891496      PMCID: PMC3422781          DOI: 10.1891/0739-6686.29.1

Source DB:  PubMed          Journal:  Annu Rev Nurs Res        ISSN: 0739-6686


  34 in total

Review 1.  Whole-genome expression analysis: challenges beyond clustering.

Authors:  R B Altman; S Raychaudhuri
Journal:  Curr Opin Struct Biol       Date:  2001-06       Impact factor: 6.809

Review 2.  ChIP-chip: considerations for the design, analysis, and application of genome-wide chromatin immunoprecipitation experiments.

Authors:  Michael J Buck; Jason D Lieb
Journal:  Genomics       Date:  2004-03       Impact factor: 5.736

3.  What makes a good genetic association study?

Authors:  Andrew T Hattersley; Mark I McCarthy
Journal:  Lancet       Date:  2005-10-08       Impact factor: 79.321

Review 4.  Chromatin immunoprecipitation for determining the association of proteins with specific genomic sequences in vivo.

Authors:  Oscar Aparicio; Joseph V Geisberg; Kevin Struhl
Journal:  Curr Protoc Cell Biol       Date:  2004-09

Review 5.  Normalization of qRT-PCR data: the necessity of adopting a systematic, experimental conditions-specific, validation of references.

Authors:  Stéphanie Guénin; Mélanie Mauriat; Jérôme Pelloux; Olivier Van Wuytswinkel; Catherine Bellini; Laurent Gutierrez
Journal:  J Exp Bot       Date:  2009       Impact factor: 6.992

Review 6.  Microarray technology and applications in the arena of genome-wide association.

Authors:  Struan F A Grant; Hakon Hakonarson
Journal:  Clin Chem       Date:  2008-05-22       Impact factor: 8.327

7.  Array-based DNA methylation profiling in acute myeloid leukaemia.

Authors:  Stefan Wilop; Agustín F Fernandez; Edgar Jost; James G Herman; Tim H Brümmendorf; Manel Esteller; Oliver Galm
Journal:  Br J Haematol       Date:  2011-07-26       Impact factor: 6.998

8.  Characterization of the yeast transcriptome.

Authors:  V E Velculescu; L Zhang; W Zhou; J Vogelstein; M A Basrai; D E Bassett; P Hieter; B Vogelstein; K W Kinzler
Journal:  Cell       Date:  1997-01-24       Impact factor: 41.582

9.  Serial analysis of gene expression.

Authors:  V E Velculescu; L Zhang; B Vogelstein; K W Kinzler
Journal:  Science       Date:  1995-10-20       Impact factor: 47.728

10.  The human colon cancer methylome shows similar hypo- and hypermethylation at conserved tissue-specific CpG island shores.

Authors:  Rafael A Irizarry; Christine Ladd-Acosta; Andrew P Feinberg; Bo Wen; Zhijin Wu; Carolina Montano; Patrick Onyango; Hengmi Cui; Kevin Gabo; Michael Rongione; Maree Webster; Hong Ji; James Potash; Sarven Sabunciyan
Journal:  Nat Genet       Date:  2009-01-18       Impact factor: 38.330

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  7 in total

1.  Current and emerging technology approaches in genomics.

Authors:  Yvette P Conley; Leslie G Biesecker; Stephen Gonsalves; Carrie J Merkle; Maggie Kirk; Bradley E Aouizerat
Journal:  J Nurs Scholarsh       Date:  2013-01-07       Impact factor: 3.176

2.  Educating future nursing scientists: Recommendations for integrating omics content in PhD programs.

Authors:  Yvette P Conley; Margaret Heitkemper; Donna McCarthy; Cindy M Anderson; Elizabeth J Corwin; Sandra Daack-Hirsch; Susan G Dorsey; Katherine E Gregory; Maureen W Groer; Susan J Henly; Timothy Landers; Debra E Lyon; Jacquelyn Y Taylor; Joachim Voss
Journal:  Nurs Outlook       Date:  2015-06-12       Impact factor: 3.250

Review 3.  An overview of epigenetics in nursing.

Authors:  Ashley Erin Clark; Maria Adamian; Jacquelyn Y Taylor
Journal:  Nurs Clin North Am       Date:  2013-11-01       Impact factor: 1.208

4.  Rationale and Design of a Genetic Study on Cardiometabolic Risk Factors: Protocol for the Tehran Cardiometabolic Genetic Study (TCGS).

Authors:  Maryam S Daneshpour; Mohammad-Sadegh Fallah; Bahareh Sedaghati-Khayat; Kamran Guity; Davood Khalili; Mehdi Hedayati; Ahmad Ebrahimi; Farhad Hajsheikholeslami; Parvin Mirmiran; Fahimeh Ramezani Tehrani; Amir-Abbas Momenan; Arash Ghanbarian; Atieh Amouzegar; Parisa Amiri; Fereidoun Azizi
Journal:  JMIR Res Protoc       Date:  2017-02-23

Review 5.  The Influence of Physical Activity and Epigenomics On Cognitive Function and Brain Health in Breast Cancer.

Authors:  Monica A Wagner; Kirk I Erickson; Catherine M Bender; Yvette P Conley
Journal:  Front Aging Neurosci       Date:  2020-05-08       Impact factor: 5.750

Review 6.  An Overview of DNA Methylation Indicators for the Course of Oral Precancer.

Authors:  Wenjing Wang; Wei Li; Hongyi Zhang
Journal:  Appl Bionics Biomech       Date:  2022-08-26       Impact factor: 1.664

Review 7.  DNA methylation markers for oral pre-cancer progression: A critical review.

Authors:  Krithiga Shridhar; Gagandeep Kaur Walia; Aastha Aggarwal; Smriti Gulati; A V Geetha; Dorairaj Prabhakaran; Preet K Dhillon; Preetha Rajaraman
Journal:  Oral Oncol       Date:  2015-12-12       Impact factor: 5.972

  7 in total

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