Differential gene expression analysis tools exhibit substandard performance for long non-coding RNA-sequencing data

Genome Biology ◽

10.1186/s13059-018-1466-5 ◽

2018 ◽

Vol 19 (1) ◽

Author(s):

Alemu Takele Assefa ◽

Katrijn De Paepe ◽

Celine Everaert ◽

Pieter Mestdagh ◽

Olivier Thas ◽

...

Keyword(s):

Gene Expression ◽

Rna Sequencing ◽

Expression Analysis ◽

Gene Expression Analysis ◽

Sequencing Data ◽

Differential Gene Expression Analysis ◽

Non Coding Rna ◽

Differential Gene ◽

Substandard Performance ◽

Long Non Coding Rna

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Differential gene expression analysis in single-cell RNA sequencing data

2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) ◽

10.1109/bibm.2017.8217650 ◽

2017 ◽

Author(s):

Tianyu Wang ◽

Sheida Nabavi

Keyword(s):

Gene Expression ◽

Single Cell ◽

Rna Sequencing ◽

Differential Gene Expression ◽

Expression Analysis ◽

Gene Expression Analysis ◽

Sequencing Data ◽

Differential Gene Expression Analysis ◽

Single Cell Rna Sequencing ◽

Differential Gene

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SigEMD: A powerful method for differential gene expression analysis in single-cell RNA sequencing data

Methods ◽

10.1016/j.ymeth.2018.04.017 ◽

2018 ◽

Vol 145 ◽

pp. 25-32 ◽

Author(s):

Tianyu Wang ◽

Sheida Nabavi

Keyword(s):

Gene Expression ◽

Single Cell ◽

Rna Sequencing ◽

Expression Analysis ◽

Gene Expression Analysis ◽

Powerful Method ◽

Sequencing Data ◽

Differential Gene Expression Analysis ◽

Single Cell Rna Sequencing ◽

Differential Gene

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Comparative analysis of differential gene expression analysis tools for single-cell RNA sequencing data

BMC Bioinformatics ◽

10.1186/s12859-019-2599-6 ◽

2019 ◽

Vol 20 (1) ◽

Author(s):

Tianyu Wang ◽

Boyang Li ◽

Craig E. Nelson ◽

Sheida Nabavi

Keyword(s):

Gene Expression ◽

Comparative Analysis ◽

Single Cell ◽

Rna Sequencing ◽

Expression Analysis ◽

Gene Expression Analysis ◽

Sequencing Data ◽

Differential Gene Expression Analysis ◽

Single Cell Rna Sequencing ◽

Differential Gene

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RNA sequencing differential gene expression analysis of isolated perfused bovine udders experimentally inoculated with Streptococcus agalactiae

Journal of Dairy Science ◽

10.3168/jds.2018-15516 ◽

2019 ◽

Vol 102 (2) ◽

pp. 1761-1767 ◽

Author(s):

A.P. Sbardella ◽

M.M.D.C.A. Weller ◽

I. Fonseca ◽

N.B. Stafuzza ◽

P.A. Bernardes ◽

...

Keyword(s):

Gene Expression ◽

Rna Sequencing ◽

Differential Gene Expression ◽

Expression Analysis ◽

Streptococcus Agalactiae ◽

Gene Expression Analysis ◽

Differential Gene Expression Analysis ◽

Differential Gene

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A Multivariate Negative-Binomial Model with Random Effects for Differential Gene-Expression Analysis of Correlated mRNA Sequencing Data

Journal of Computational Biology ◽

10.1089/cmb.2019.0168 ◽

2019 ◽

Vol 26 (12) ◽

pp. 1339-1348 ◽

Author(s):

Denis Kazakiewicz ◽

Jürgen Claesen ◽

Katarzyna Górczak ◽

Dariusz Plewczynski ◽

Tomasz Burzykowski

Keyword(s):

Gene Expression ◽

Random Effects ◽

Expression Analysis ◽

Gene Expression Analysis ◽

Negative Binomial ◽

Binomial Model ◽

Sequencing Data ◽

Differential Gene Expression Analysis ◽

Mrna Sequencing ◽

Differential Gene

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Differential Gene Expression Analysis of Aspergillus terreus Reveals Metabolic Response and Transcription Suppression under Dissolved Oxygen and pH Stress

Journal of Evolutionary Biochemistry and Physiology ◽

10.1134/s0022093020060101 ◽

2020 ◽

Vol 56 (6) ◽

pp. 577-586

Author(s):

P. Songserm ◽

P. Srimongkol ◽

S. Thitiprasert ◽

S. Tanasupawat ◽

B. Cheirsilp ◽

...

Keyword(s):

Gene Expression ◽

Dissolved Oxygen ◽

Differential Gene Expression ◽

Expression Analysis ◽

Gene Expression Analysis ◽

Aspergillus Terreus ◽

Metabolic Response ◽

Differential Gene Expression Analysis ◽

Differential Gene ◽

Transcription Suppression

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Transcriptome Sequencing and Differential Gene Expression Analysis of Delayed Gland Morphogenesis in Gossypium australe during Seed Germination

PLoS ONE ◽

10.1371/journal.pone.0075323 ◽

2013 ◽

Vol 8 (9) ◽

pp. e75323 ◽

Author(s):

Tao Tao ◽

Liang Zhao ◽

Yuanda Lv ◽

Jiedan Chen ◽

Yan Hu ◽

...

Keyword(s):

Gene Expression ◽

Seed Germination ◽

Differential Gene Expression ◽

Expression Analysis ◽

Transcriptome Sequencing ◽

Gene Expression Analysis ◽

Differential Gene Expression Analysis ◽

Differential Gene ◽

Gland Morphogenesis

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Differential gene expression analysis in 1,25(OH)2D3 treated human monocytes establishes link between AIDS progression, neurodegenerative disorders, and aging

Meta Gene ◽

10.1016/j.mgene.2021.100886 ◽

2021 ◽

Vol 28 ◽

pp. 100886

Author(s):

Biswajit Biswas ◽

Ritobrata Goswami

Keyword(s):

Gene Expression ◽

Differential Gene Expression ◽

Expression Analysis ◽

Neurodegenerative Disorders ◽

Gene Expression Analysis ◽

Human Monocytes ◽

Differential Gene Expression Analysis ◽

Aids Progression ◽

Differential Gene

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Transcriptome sequencing and differential gene expression analysis reveal the mechanisms involved in seed germination and protocorm development of Calanthe tsoongiana

Gene ◽

10.1016/j.gene.2020.145355 ◽

2021 ◽

Vol 772 ◽

pp. 145355

Author(s):

Yating Jiang ◽

Min Tian ◽

Caixia Wang ◽

Ying Zhang

Keyword(s):

Gene Expression ◽

Seed Germination ◽

Differential Gene Expression ◽

Expression Analysis ◽

Transcriptome Sequencing ◽

Gene Expression Analysis ◽

Differential Gene Expression Analysis ◽

Differential Gene

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Differential gene expression analysis in Enchytraeus albidus exposed to natural and chemical stressors at different exposure periods

Ecotoxicology ◽

10.1007/s10646-011-0780-4 ◽

2011 ◽

Vol 21 (1) ◽

pp. 213-224 ◽

Author(s):

Sara C. Novais ◽

Clara F. Howcroft ◽

Laura Carreto ◽

Patrícia M. Pereira ◽

Manuel A. S. Santos ◽

...

Keyword(s):

Gene Expression ◽

Differential Gene Expression ◽

Expression Analysis ◽

Gene Expression Analysis ◽

Differential Gene Expression Analysis ◽

Differential Gene

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