Literature DB >> 24303327

Clinical genomicist workstation.

Mukesh K Sharma1, Joshua Phillips, Saurabh Agarwal, Wesley S Wiggins, Savita Shrivastava, Sunita B Koul, Madhurima Bhattacharjee, Caerie D Houchins, Raghavendra R Kalakota, Bijoy George, Rekha R Meyer, David H Spencer, Christina M Lockwood, Tudung T Nguyen, Eric J Duncavage, Hussam Al-Kateb, Catherine E Cottrell, Suhasini Godala, Raviteja Lokineni, Sameer M Sawant, Vasudev Chatti, Suresh Surampudi, Raja Rao Sunkishala, Ramakant Darbha, Sharath Macharla, Jeffrey D Milbrandt, Herbert W Virgin, Robi D Mitra, Richard D Head, Shashikant Kulkarni, Andrew Bredemeyer, John D Pfeifer, Karen Seibert, Rakesh Nagarajan.   

Abstract

The use of NextGen Sequencing clinically necessitates the need for informatics tools that support the complete workflow from sample accessioning to data analysis and reporting. To address this need we have developed Clinical Genomicist Workstation (CGW). CGW is a secure, n-tiered application where web browser submits requests to application servers that persist the data in a relational database. CGW is used by Washington University Genomic and Pathology Services for clinical genomic testing of many cancers. CGW has been used to accession, analyze and sign out over 409 cases since November, 2011. There are 22 ordering oncologists and 7 clinical genomicists that use the CGW. In summary, CGW a 'soup-to-nuts' solution to track, analyze, interpret, and report clinical genomic diagnostic tests.

Entities:  

Year:  2013        PMID: 24303327

Source DB:  PubMed          Journal:  AMIA Jt Summits Transl Sci Proc


  9 in total

1.  System for Informatics in the Molecular Pathology Laboratory: An Open-Source End-to-End Solution for Next-Generation Sequencing Clinical Data Management.

Authors:  Wenjun Kang; Sabah Kadri; Rutika Puranik; Michelle N Wurst; Sushant A Patil; Ibro Mujacic; Sonia Benhamed; Nifang Niu; Chao Jie Zhen; Bekim Ameti; Bradley C Long; Filipo Galbo; David Montes; Crystal Iracheta; Venessa L Gamboa; Daisy Lopez; Michael Yourshaw; Carolyn A Lawrence; Dara L Aisner; Carrie Fitzpatrick; Megan E McNerney; Y Lynn Wang; Jorge Andrade; Samuel L Volchenboum; Larissa V Furtado; Lauren L Ritterhouse; Jeremy P Segal
Journal:  J Mol Diagn       Date:  2018-04-24       Impact factor: 5.568

2.  Beyond Panel-Based Testing: Exome Analysis Increases Sensitivity for Diagnosis of Genetic Kidney Disease.

Authors:  Parker C Wilson; Latisha Love-Gregory; Meagan Corliss; Samantha McNulty; Jonathan W Heusel; Joseph P Gaut
Journal:  Kidney360       Date:  2020-05-13

Review 3.  GeneMed: An Informatics Hub for the Coordination of Next-Generation Sequencing Studies that Support Precision Oncology Clinical Trials.

Authors:  Yingdong Zhao; Eric C Polley; Ming-Chung Li; Chih-Jian Lih; Alida Palmisano; David J Sims; Lawrence V Rubinstein; Barbara A Conley; Alice P Chen; P Mickey Williams; Shivaani Kummar; James H Doroshow; Richard M Simon
Journal:  Cancer Inform       Date:  2015-03-19

4.  Development and implementation of a custom integrated database with dashboards to assist with hematopathology specimen triage and traffic.

Authors:  Elizabeth M Azzato; Jennifer J D Morrissette; Regina D Halbiger; Adam Bagg; Robert D Daber
Journal:  J Pathol Inform       Date:  2014-08-28

Review 5.  Available resources and challenges for the clinical annotation of somatic variations.

Authors:  Catherine I Dumur
Journal:  Cancer Cytopathol       Date:  2014-08-08       Impact factor: 5.284

6.  iReport: a generalised Galaxy solution for integrated experimental reporting.

Authors:  Saskia Hiltemann; Youri Hoogstrate; Peter van der Spek; Guido Jenster; Andrew Stubbs
Journal:  Gigascience       Date:  2014-10-13       Impact factor: 6.524

7.  Routine use of clinical exome-based next-generation sequencing for evaluation of patients with thrombotic microangiopathies.

Authors:  Joseph P Gaut; Sanjay Jain; John D Pfeifer; Katinka A Vigh-Conrad; Meagan Corliss; Mukesh K Sharma; Jonathan W Heusel; Catherine E Cottrell
Journal:  Mod Pathol       Date:  2017-07-28       Impact factor: 7.842

Review 8.  Neurogenomics: An opportunity to integrate neuroscience, genomics and bioinformatics research in Africa.

Authors:  Thomas K Karikari; Jelena Aleksic
Journal:  Appl Transl Genom       Date:  2015-07-22

9.  Artificial Intelligence Approach for Variant Reporting.

Authors:  Michael G Zomnir; Lev Lipkin; Maciej Pacula; Enrique Dominguez Meneses; Allison MacLeay; Sekhar Duraisamy; Nishchal Nadhamuni; Saeed H Al Turki; Zongli Zheng; Miguel Rivera; Valentina Nardi; Dora Dias-Santagata; A John Iafrate; Long P Le; Jochen K Lennerz
Journal:  JCO Clin Cancer Inform       Date:  2018-03-22
  9 in total

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