Literature DB >> 30668667

Functional data analysis for computational biology.

Marzia A Cremona1, Hongyan Xu2, Kateryna D Makova3,4, Matthew Reimherr1, Francesca Chiaromonte1,5, Pedro Madrigal6,7.   

Abstract

SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
© The Author(s) 2019. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Year:  2019        PMID： 30668667      PMCID： PMC6736445          DOI： 10.1093/bioinformatics/btz045

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  17 in total

1.  FGWAS: Functional genome wide association analysis.

Authors:  Chao Huang; Paul Thompson; Yalin Wang; Yang Yu; Jingwen Zhang; Dehan Kong; Rivka R Colen; Rebecca C Knickmeyer; Hongtu Zhu
Journal:  Neuroimage       Date:  2017-07-20       Impact factor: 6.556

2.  FunChIP: an R/Bioconductor package for functional classification of ChIP-seq shapes.

Authors:  Alice C L Parodi; Laura M Sangalli; Simone Vantini; Bruno Amati; Piercesare Secchi; Marco J Morelli
Journal:  Bioinformatics       Date:  2017-08-15       Impact factor: 6.937

3.  Uncovering correlated variability in epigenomic datasets using the Karhunen-Loeve transform.

Authors:  Pedro Madrigal; Paweł Krajewski
Journal:  BioData Min       Date:  2015-07-01       Impact factor: 2.522

4.  PolyaPeak: detecting transcription factor binding sites from ChIP-seq using peak shape information.

Authors:  Hao Wu; Hongkai Ji
Journal:  PLoS One       Date:  2014-03-07       Impact factor: 3.240

5.  Peak shape clustering reveals biological insights.

Authors:  Marzia A Cremona; Laura M Sangalli; Simone Vantini; Gaetano I Dellino; Pier Giuseppe Pelicci; Piercesare Secchi; Laura Riva
Journal:  BMC Bioinformatics       Date:  2015-10-28       Impact factor: 3.169

6.  Integration and Fixation Preferences of Human and Mouse Endogenous Retroviruses Uncovered with Functional Data Analysis.

Authors:  Rebeca Campos-Sánchez; Marzia A Cremona; Alessia Pini; Francesca Chiaromonte; Kateryna D Makova
Journal:  PLoS Comput Biol       Date:  2016-06-16       Impact factor: 4.475

7.  fCCAC: functional canonical correlation analysis to evaluate covariance between nucleic acid sequencing datasets.

Authors:  Pedro Madrigal
Journal:  Bioinformatics       Date:  2017-03-01       Impact factor: 6.937

8.  Shape information from glucose curves: functional data analysis compared with traditional summary measures.

Authors:  Kathrine Frey Frøslie; Jo Røislien; Elisabeth Qvigstad; Kristin Godang; Jens Bollerslev; Nanna Voldner; Tore Henriksen; Marit B Veierød
Journal:  BMC Med Res Methodol       Date:  2013-01-17       Impact factor: 4.615

9.  Characterising ChIP-seq binding patterns by model-based peak shape deconvolution.

Authors:  Marco-Antonio Mendoza-Parra; Malgorzata Nowicka; Wouter Van Gool; Hinrich Gronemeyer
Journal:  BMC Genomics       Date:  2013-11-26       Impact factor: 3.969

10.  MMDiff: quantitative testing for shape changes in ChIP-Seq data sets.

Authors:  Gabriele Schweikert; Botond Cseke; Thomas Clouaire; Adrian Bird; Guido Sanguinetti
Journal:  BMC Genomics       Date:  2013-11-24       Impact factor: 3.969
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  5 in total

1.  Human L1 Transposition Dynamics Unraveled with Functional Data Analysis.

Authors:  Di Chen; Marzia A Cremona; Zongtai Qi; Robi D Mitra; Francesca Chiaromonte; Kateryna D Makova
Journal:  Mol Biol Evol       Date:  2020-12-16       Impact factor: 16.240

2.  Learning the properties of adaptive regions with functional data analysis.

Authors:  Mehreen R Mughal; Hillary Koch; Jinguo Huang; Francesca Chiaromonte; Michael DeGiorgio
Journal:  PLoS Genet       Date:  2020-08-27       Impact factor: 5.917

3.  Non-B DNA: a major contributor to small- and large-scale variation in nucleotide substitution frequencies across the genome.

Authors:  Wilfried M Guiblet; Marzia A Cremona; Robert S Harris; Di Chen; Kristin A Eckert; Francesca Chiaromonte; Yi-Fei Huang; Kateryna D Makova
Journal:  Nucleic Acids Res       Date:  2021-02-22       Impact factor: 16.971

4.  Integration of Count Difference and Curve Similarity in Negative Regulatory Element Detection.

Authors:  Na He; Wenjing Wang; Chao Fang; Yongjian Tan; Li Li; Chunhui Hou
Journal:  Front Genet       Date:  2022-02-18       Impact factor: 4.599

5.  Functional data analysis characterizes the shapes of the first COVID-19 epidemic wave in Italy.

Authors:  Tobia Boschi; Jacopo Di Iorio; Lorenzo Testa; Marzia A Cremona; Francesca Chiaromonte
Journal:  Sci Rep       Date:  2021-08-30       Impact factor: 4.379
  5 in total

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