Literature DB >> 33018194

Automated Classification of Osteosarcoma and Benign Tumors using RNA-seq and Plain X-ray.

Olivia Alge, Lu Lu, Zhi Li, Yingqi Hua, Jonathan Gryak, Kayvan Najarian.   

Abstract

Osteosarcoma is a prominent bone cancer that typically affects adolescents or people in late adulthood. Early recognition of this disease relies on imaging technologies such as x-ray radiography to detect tumor size and location. This paper aims to differentiate osteosarcoma from benign tumors by analyzing both imaging and RNA-seq data through a combination of image processing and machine learning. In experimental results, the proposed method achieved an Area Under the Receiver Operator Characteristic Curve (AUC) of 0.7272 in three-fold cross-validation, and an AUC of 0.9015 using leave-one-out cross-validation.

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Year:  2020        PMID: 33018194      PMCID: PMC7971184          DOI: 10.1109/EMBC44109.2020.9176104

Source DB:  PubMed          Journal:  Annu Int Conf IEEE Eng Med Biol Soc        ISSN: 2375-7477


  11 in total

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2.  Declining childhood and adolescent cancer mortality.

Authors:  Malcolm A Smith; Sean F Altekruse; Peter C Adamson; Gregory H Reaman; Nita L Seibel
Journal:  Cancer       Date:  2014-05-22       Impact factor: 6.860

3.  MLSeq: Machine learning interface for RNA-sequencing data.

Authors:  Dincer Goksuluk; Gokmen Zararsiz; Selcuk Korkmaz; Vahap Eldem; Gozde Erturk Zararsiz; Erdener Ozcetin; Ahmet Ozturk; Ahmet Ergun Karaagaoglu
Journal:  Comput Methods Programs Biomed       Date:  2019-04-29       Impact factor: 5.428

4.  Osteosarcoma Patients Classification Using Plain X-Rays and Metabolomic Data.

Authors:  Rebecca Shen; Zhi Li; Linglin Zhang; Yingqi Hua; Min Mao; Zhicong Li; Zhengdong Cai; Yunping Qiu; Jonathan Gryak; Kayvan Najarian
Journal:  Annu Int Conf IEEE Eng Med Biol Soc       Date:  2018-07

5.  Comparison of statistical methods for classification of ovarian cancer using mass spectrometry data.

Authors:  Baolin Wu; Tom Abbott; David Fishman; Walter McMurray; Gil Mor; Kathryn Stone; David Ward; Kenneth Williams; Hongyu Zhao
Journal:  Bioinformatics       Date:  2003-09-01       Impact factor: 6.937

6.  Differential expression analysis for sequence count data.

Authors:  Simon Anders; Wolfgang Huber
Journal:  Genome Biol       Date:  2010-10-27       Impact factor: 13.583

7.  QoRTs: a comprehensive toolset for quality control and data processing of RNA-Seq experiments.

Authors:  Stephen W Hartley; James C Mullikin
Journal:  BMC Bioinformatics       Date:  2015-07-19       Impact factor: 3.169

8.  Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.

Authors:  Michael I Love; Wolfgang Huber; Simon Anders
Journal:  Genome Biol       Date:  2014       Impact factor: 13.583

9.  Classification, imaging, biopsy and staging of osteosarcoma.

Authors:  Zile Singh Kundu
Journal:  Indian J Orthop       Date:  2014-05       Impact factor: 1.251

10.  GENCODE reference annotation for the human and mouse genomes.

Authors:  Adam Frankish; Mark Diekhans; Anne-Maud Ferreira; Rory Johnson; Irwin Jungreis; Jane Loveland; Jonathan M Mudge; Cristina Sisu; James Wright; Joel Armstrong; If Barnes; Andrew Berry; Alexandra Bignell; Silvia Carbonell Sala; Jacqueline Chrast; Fiona Cunningham; Tomás Di Domenico; Sarah Donaldson; Ian T Fiddes; Carlos García Girón; Jose Manuel Gonzalez; Tiago Grego; Matthew Hardy; Thibaut Hourlier; Toby Hunt; Osagie G Izuogu; Julien Lagarde; Fergal J Martin; Laura Martínez; Shamika Mohanan; Paul Muir; Fabio C P Navarro; Anne Parker; Baikang Pei; Fernando Pozo; Magali Ruffier; Bianca M Schmitt; Eloise Stapleton; Marie-Marthe Suner; Irina Sycheva; Barbara Uszczynska-Ratajczak; Jinuri Xu; Andrew Yates; Daniel Zerbino; Yan Zhang; Bronwen Aken; Jyoti S Choudhary; Mark Gerstein; Roderic Guigó; Tim J P Hubbard; Manolis Kellis; Benedict Paten; Alexandre Reymond; Michael L Tress; Paul Flicek
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

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  1 in total

1.  Intelligent Segmentation Medical Assistance System for MRI Images of Osteosarcoma in Developing Countries.

Authors:  Jia Wu; Shun Yang; Fangfang Gou; Zhixun Zhou; Peng Xie; Nuo Xu; Zhehao Dai
Journal:  Comput Math Methods Med       Date:  2022-01-19       Impact factor: 2.238

  1 in total

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