Literature DB >> 26132000

Using the PhenX Toolkit to Add Standard Measures to a Study.

Tabitha Hendershot1, Huaqin Pan1, Jonathan Haines2, William R Harlan3, Mary L Marazita4, Catherine A McCarty5, Erin M Ramos6, Carol M Hamilton1.   

Abstract

The PhenX (consensus measures for Phenotypes and eXposures) Toolkit (https://www.phenxtoolkit.org/) offers high-quality, well-established measures of phenotypes and exposures for use by the scientific community. The goal is to promote the use of standard measures, enhance data interoperability, and help investigators identify opportunities for collaborative and translational research. The Toolkit contains 395 measures drawn from 22 research domains (fields of research), along with additional collections of measures for Substance Abuse and Addiction (SAA) research, Mental Health Research (MHR), and Tobacco Regulatory Research (TRR). Additional measures for TRR that are expected to be released in 2015 include Obesity, Eating Disorders, and Sickle Cell Disease. Measures are selected by working groups of domain experts using a consensus process that includes input from the scientific community. The Toolkit provides a description of each PhenX measure, the rationale for including it in the Toolkit, protocol(s) for collecting the measure, and supporting documentation. Users can browse measures in the Toolkit or can search the Toolkit using the Smart Query Tool or a full text search. PhenX Toolkit users select measures of interest to add to their Toolkit. Registered Toolkit users can save their Toolkit and return to it later to revise or complete. They then have options to download a customized Data Collection Worksheet that specifies the data to be collected, and a Data Dictionary that describes each variable included in the Data Collection Worksheet. The Toolkit also has a Register Your Study feature that facilitates cross-study collaboration by allowing users to find other investigators using the same PhenX measures.
Copyright © 2015 John Wiley & Sons, Inc.

Entities:  

Keywords:  PhenX; phenotypes; environmental exposures; epidemiology; genome-wide association studies (GWAS); research; standard measures

Mesh:

Year:  2015        PMID: 26132000      PMCID: PMC8029591          DOI: 10.1002/0471142905.hg0121s86

Source DB:  PubMed          Journal:  Curr Protoc Hum Genet        ISSN: 1934-8258


  5 in total

1.  Phenotype harmonization and cross-study collaboration in GWAS consortia: the GENEVA experience.

Authors:  Siiri N Bennett; Neil Caporaso; Annette L Fitzpatrick; Arpana Agrawal; Kathleen Barnes; Heather A Boyd; Marilyn C Cornelis; Nadia N Hansel; Gerardo Heiss; John A Heit; Jae Hee Kang; Steven J Kittner; Peter Kraft; William Lowe; Mary L Marazita; Kristine R Monroe; Louis R Pasquale; Erin M Ramos; Rob M van Dam; Jenna Udren; Kayleen Williams
Journal:  Genet Epidemiol       Date:  2011-01-31       Impact factor: 2.135

2.  The NCBI dbGaP database of genotypes and phenotypes.

Authors:  Matthew D Mailman; Michael Feolo; Yumi Jin; Masato Kimura; Kimberly Tryka; Rinat Bagoutdinov; Luning Hao; Anne Kiang; Justin Paschall; Lon Phan; Natalia Popova; Stephanie Pretel; Lora Ziyabari; Moira Lee; Yu Shao; Zhen Y Wang; Karl Sirotkin; Minghong Ward; Michael Kholodov; Kerry Zbicz; Jeffrey Beck; Michael Kimelman; Sergey Shevelev; Don Preuss; Eugene Yaschenko; Alan Graeff; James Ostell; Stephen T Sherry
Journal:  Nat Genet       Date:  2007-10       Impact factor: 38.330

3.  Data compatibility in the addiction sciences: an examination of measure commonality.

Authors:  Kevin P Conway; Genevieve C Vullo; Ashley P Kennedy; Matthew S Finger; Arpana Agrawal; James M Bjork; Lindsay A Farrer; Dana B Hancock; Andrea Hussong; Paul Wakim; Wayne Huggins; Tabitha Hendershot; Destiney S Nettles; Joseph Pratt; Deborah Maiese; Heather A Junkins; Erin M Ramos; Lisa C Strader; Carol M Hamilton; Kenneth J Sher
Journal:  Drug Alcohol Depend       Date:  2014-05-20       Impact factor: 4.492

Review 4.  PhenX: a toolkit for interdisciplinary genetics research.

Authors:  Patrick J Stover; William R Harlan; Jane A Hammond; Tabitha Hendershot; Carol M Hamilton
Journal:  Curr Opin Lipidol       Date:  2010-04       Impact factor: 4.776

5.  PhenX RISING: real world implementation and sharing of PhenX measures.

Authors:  Catherine A McCarty; Wayne Huggins; Allison E Aiello; Robert M Bilder; Ahmad Hariri; Terry L Jernigan; Erik Newman; Dharambir K Sanghera; Timothy J Strauman; Yi Zeng; Erin M Ramos; Heather A Junkins
Journal:  BMC Med Genomics       Date:  2014-03-20       Impact factor: 3.063

  5 in total
  16 in total

1.  The REDCap consortium: Building an international community of software platform partners.

Authors:  Paul A Harris; Robert Taylor; Brenda L Minor; Veida Elliott; Michelle Fernandez; Lindsay O'Neal; Laura McLeod; Giovanni Delacqua; Francesco Delacqua; Jacqueline Kirby; Stephany N Duda
Journal:  J Biomed Inform       Date:  2019-05-09       Impact factor: 6.317

Review 2.  Social determinants of health data in solid organ transplantation: National data sources and future directions.

Authors:  Norine W Chan; Mary Moya-Mendez; Jacqueline B Henson; Hamed Zaribafzadeh; Mark P Sendak; Nrupen A Bhavsar; Suresh Balu; Allan D Kirk; Lisa M McElroy
Journal:  Am J Transplant       Date:  2022-06-18       Impact factor: 9.369

3.  Addressing Methodologic Challenges and Minimizing Threats to Validity in Synthesizing Findings from Individual-Level Data Across Longitudinal Randomized Trials.

Authors:  Ahnalee Brincks; Samantha Montag; George W Howe; Shi Huang; Juned Siddique; Soyeon Ahn; Irwin N Sandler; Hilda Pantin; C Hendricks Brown
Journal:  Prev Sci       Date:  2018-02

4.  Research standardization tools: pregnancy measures in the PhenX Toolkit.

Authors:  Ann Kinga Malinowski; Cande V Ananth; Patrick Catalano; Erin P Hines; Russell S Kirby; Mark A Klebanoff; John J Mulvihill; Hyagriv Simhan; Carol M Hamilton; Tabitha P Hendershot; Michael J Phillips; Lisa A Kilpatrick; Deborah R Maiese; Erin M Ramos; Rosalind J Wright; Siobhan M Dolan
Journal:  Am J Obstet Gynecol       Date:  2017-05-31       Impact factor: 8.661

Review 5.  The Value of Biosamples in Smoking Cessation Trials: A Review of Genetic, Metabolomic, and Epigenetic Findings.

Authors:  Nancy L Saccone; James W Baurley; Andrew W Bergen; Sean P David; Hannah R Elliott; Marilyn G Foreman; Jaakko Kaprio; Thomas M Piasecki; Caroline L Relton; Laurie Zawertailo; Laura J Bierut; Rachel F Tyndale; Li-Shiun Chen
Journal:  Nicotine Tob Res       Date:  2018-03-06       Impact factor: 4.244

Review 6.  The case for open science: rare diseases.

Authors:  Yaffa R Rubinstein; Peter N Robinson; William A Gahl; Paul Avillach; Gareth Baynam; Helene Cederroth; Rebecca M Goodwin; Stephen C Groft; Mats G Hansson; Nomi L Harris; Vojtech Huser; Deborah Mascalzoni; Julie A McMurry; Matthew Might; Christoffer Nellaker; Barend Mons; Dina N Paltoo; Jonathan Pevsner; Manuel Posada; Alison P Rockett-Frase; Marco Roos; Tamar B Rubinstein; Domenica Taruscio; Esther van Enckevort; Melissa A Haendel
Journal:  JAMIA Open       Date:  2020-09-11

7.  The PhenX Toolkit: Establishing Standard Measures for COVID-19 Research.

Authors:  Michelle C Krzyzanowski; Ian Terry; David Williams; Pat West; Lauren N Gridley; Carol M Hamilton
Journal:  Curr Protoc       Date:  2021-04

8.  Proceedings of a Sickle Cell Disease Ontology workshop - Towards the first comprehensive ontology for Sickle Cell Disease.

Authors:  Nicola Mulder; Victoria Nembaware; Adekunle Adekile; Kofi A Anie; Baba Inusa; Biobele Brown; Andrew Campbell; Furahini Chinenere; Catherine Chunda-Liyoka; Vimal K Derebail; Amy Geard; Kais Ghedira; Carol M Hamilton; Neil A Hanchard; Melissa Haendel; Wayne Huggins; Muntaser Ibrahim; Simon Jupp; Karen Kengne Kamga; Jennifer Knight-Madden; Philomène Lopez-Sall; Mamana Mbiyavanga; Deogratias Munube; Damian Nirenberg; Obiageli Nnodu; Solomon Fiifi Ofori-Acquah; Kwaku Ohene-Frempong; Kenneth Babu Opap; Sumir Panji; Miriam Park; Gift Pule; Charmaine Royal; Raphael Sangeda; Bamidele Tayo; Marsha Treadwell; Léon Tshilolo; Ambroise Wonkam
Journal:  Appl Transl Genom       Date:  2016-03-15

9.  Visual mapping of body image disturbance in anorexia nervosa reveals objective markers of illness severity.

Authors:  Christina Ralph-Nearman; Armen C Arevian; Scott Moseman; Megan Sinik; Sheridan Chappelle; Jamie D Feusner; Sahib S Khalsa
Journal:  Sci Rep       Date:  2021-06-10       Impact factor: 4.379

10.  Using the PhenX Toolkit to Select Standard Measurement Protocols for Your Research Study.

Authors:  Lisa Ann Cox; Stephen Hwang; Jonathan Haines; Erin M Ramos; Catherine A McCarty; Mary L Marazita; Michelle L Engle; Tabitha Hendershot; Huaqin Helen Pan; Carol M Hamilton
Journal:  Curr Protoc       Date:  2021-05
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