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Academic Journal

Poly(a) selection introduces bias and undue noise in direct RNA-sequencing.

  • Authors : Viscardi MJ; Department of Molecular, Cellular and Developmental Biology, University of California at Santa Cruz, Santa Cruz, CA, USA.; Arribere JA

Subjects: Poly A*/Poly A*/Poly A*/genetics ; Poly A*/Poly A*/Poly A*/metabolism ; RNA*/RNA*/RNA*/metabolism

  • Source: BMC genomics [BMC Genomics] 2022 Jul 22; Vol. 23 (1), pp. 530. Date of Electronic Publication: 2022 Jul 22.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

Evaluation of methods to detect circular RNAs from single-end RNA-sequencing data.

  • Authors : Nguyen MH; Information Technology Institute, Vietnam National University in Hanoi, Hanoi, Vietnam.; University of Engineering and Technology, Vietnam National University in Hanoi, Hanoi, Vietnam.

Subjects: RNA*/RNA*/RNA*/genetics ; RNA, Circular*; High-Throughput Nucleotide Sequencing

  • Source: BMC genomics [BMC Genomics] 2022 Feb 08; Vol. 23 (1), pp. 106. Date of Electronic Publication: 2022 Feb 08.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

Comparative analysis of circular RNAs between soybean cytoplasmic male-sterile line NJCMS1A and its maintainer NJCMS1B by high-throughput sequencing.

  • Authors : Chen L; Soybean Research Institute, National Center for Soybean Improvement, Key Laboratory of Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), State Key Laboratory of Crop Genetics and Germplasm Enhancement, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, 210095, China.; Ding X

Subjects: High-Throughput Nucleotide Sequencing* ; Sequence Analysis, RNA*; Cytoplasm/Cytoplasm/Cytoplasm/*genetics

  • Source: BMC genomics [BMC Genomics] 2018 Sep 12; Vol. 19 (1), pp. 663. Date of Electronic Publication: 2018 Sep 12.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

Virus expression detection reveals RNA-sequencing contamination in TCGA.

  • Authors : Selitsky SR; Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, 27599, USA.; Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, 27599, USA.

Subjects: DNA Contamination* ; RNA*; High-Throughput Nucleotide Sequencing/High-Throughput Nucleotide Sequencing/High-Throughput Nucleotide Sequencing/*standards

  • Source: BMC genomics [BMC Genomics] 2020 Jan 28; Vol. 21 (1), pp. 79. Date of Electronic Publication: 2020 Jan 28.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

Assessing characteristics of RNA amplification methods for single cell RNA sequencing.

  • Authors : Dueck HR; Department of Genomics and Computational Biology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.; Ai R

Subjects: High-Throughput Nucleotide Sequencing*/High-Throughput Nucleotide Sequencing*/High-Throughput Nucleotide Sequencing*/methods ; Nucleic Acid Amplification Techniques* ; Single-Cell Analysis*/Single-Cell Analysis*/Single-Cell Analysis*/methods

  • Source: BMC genomics [BMC Genomics] 2016 Nov 24; Vol. 17 (1), pp. 966. Date of Electronic Publication: 2016 Nov 24.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

OMICfpp: a fuzzy approach for paired RNA-Seq counts.

  • Authors : Berral-Gonzalez A; Grupo de Investigación Bioinformática y Genómica Funcional. Laboratorio 19. Centro de Investigación del Cáncer (CiC-IBMCC, Universidad de Salamanca-CSIC, Campus Universitario Miguel de Unamuno s/n, Salamanca, 37007, Spain.; Riffo-Campos AL

Subjects: User-Computer Interface*; RNA/RNA/RNA/*metabolism ; Sequence Analysis, RNA/Sequence Analysis, RNA/Sequence Analysis, RNA/*methods

  • Source: BMC genomics [BMC Genomics] 2019 Apr 02; Vol. 20 (1), pp. 259. Date of Electronic Publication: 2019 Apr 02.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

Improvements to the HITS-CLIP protocol eliminate widespread mispriming artifacts.

  • Authors : Gillen AE; Department of Medicine, University of Colorado Denver, Aurora, CO, USA. .; Yamamoto TM

Subjects: Artifacts* ; Binding Sites* ; High-Throughput Nucleotide Sequencing*/High-Throughput Nucleotide Sequencing*/High-Throughput Nucleotide Sequencing*/methods

  • Source: BMC genomics [BMC Genomics] 2016 May 05; Vol. 17, pp. 338. Date of Electronic Publication: 2016 May 05.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

Exploring the unmapped DNA and RNA reads in a songbird genome.

  • Authors : Laine VN; Department of Animal Ecology, NIOO-KNAW, Wageningen, The Netherlands. .; Gossmann TI

Subjects: DNA/DNA/DNA/*genetics ; Genome/Genome/Genome/*genetics ; RNA/RNA/RNA/*genetics

  • Source: BMC genomics [BMC Genomics] 2019 Jan 08; Vol. 20 (1), pp. 19. Date of Electronic Publication: 2019 Jan 08.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

A fast detection of fusion genes from paired-end RNA-seq data.

  • Authors : Vu TN; Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Nobels väg 12A, Stockholm, 17177, Sweden.; Deng W

Subjects: Gene Fusion* ; Sequence Analysis, RNA*/Sequence Analysis, RNA*/Sequence Analysis, RNA*/methods; RNA/RNA/RNA/*genetics

  • Source: BMC genomics [BMC Genomics] 2018 Nov 01; Vol. 19 (1), pp. 786. Date of Electronic Publication: 2018 Nov 01.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

RNA-QC-chain: comprehensive and fast quality control for RNA-Seq data.

  • Authors : Zhou Q; Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Key Laboratory for Sustainable Development of Marine Fisheries, Ministry of Agriculture, and Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao, Shandong, 266071, China.; Su X

Subjects: Software*; Computational Biology/Computational Biology/Computational Biology/*methods ; RNA/RNA/RNA/*genetics

  • Source: BMC genomics [BMC Genomics] 2018 Feb 14; Vol. 19 (1), pp. 144. Date of Electronic Publication: 2018 Feb 14.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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