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Academic Journal

scQCEA: a framework for annotation and quality control report of single-cell RNA-sequencing data.

  • Authors : Nassiri I; Oxford Genomics Centre, Nuffield Department of Medicine, Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK. .; Fairfax B

Subjects: Software* ; Gene Expression Profiling*; Animals

  • Source: BMC genomics [BMC Genomics] 2023 Jul 06; Vol. 24 (1), pp. 381. Date of Electronic Publication: 2023 Jul 06.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

SUsPECT: a pipeline for variant effect prediction based on custom long-read transcriptomes for improved clinical variant annotation.

  • Authors : Salz R; Department of Medical BioSciences, Radboud University Medical Center, Nijmegen, 6525 GA, the Netherlands.; Saraiva-Agostinho N

Subjects: Transcriptome* ; Software*; Humans

  • Source: BMC genomics [BMC Genomics] 2023 Jun 06; Vol. 24 (1), pp. 305. Date of Electronic Publication: 2023 Jun 06.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

pandasGWAS: a Python package for easy retrieval of GWAS catalog data.

  • Authors : Cao T; School of Mathematics, Hangzhou Normal University, Hangzhou, 311121, China.; Li A

Subjects: Genome-Wide Association Study* ; Software*; Humans

  • Source: BMC genomics [BMC Genomics] 2023 May 04; Vol. 24 (1), pp. 238. Date of Electronic Publication: 2023 May 04.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

Inferring biological kinship in ancient datasets: comparing the response of ancient DNA-specific software packages to low coverage data.

  • Authors : Marsh WA; Natural History Museum, Cromwell Road, SW7 5BD, London, England. .; BioArCh, University of York, YO10 5NG, York, England. .

Subjects: DNA, Ancient*/DNA, Ancient*/DNA, Ancient*/analysis ; Software*; Humans

  • Source: BMC genomics [BMC Genomics] 2023 Mar 14; Vol. 24 (1), pp. 111. Date of Electronic Publication: 2023 Mar 14.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

The Allele Catalog Tool: a web-based interactive tool for allele discovery and analysis.

  • Authors : Chan YO; MU Institute for Data Science and Informatics, University of Missouri-Columbia, Columbia, MO, USA.; Christopher S. Bond Life Sciences Center, University of Missouri-Columbia, Columbia, MO, USA.

Subjects: Alleles* ; Internet* ; Software*

  • Source: BMC genomics [BMC Genomics] 2023 Mar 10; Vol. 24 (1), pp. 107. Date of Electronic Publication: 2023 Mar 10.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

amica: an interactive and user-friendly web-platform for the analysis of proteomics data.

  • Authors : Didusch S; Max Perutz Labs, Vienna Biocenter Campus (VBC), Dr.-Bohr-Gasse 9, 1030, Vienna, Austria. .; Vienna BioCenter PhD Program, Doctoral School of the University of Vienna and Medical University of Vienna, Vienna, Austria. .

Subjects: Proteomics*/Proteomics*/Proteomics*/methods ; Software*; Proteins/Proteins/Proteins/metabolism

  • Source: BMC genomics [BMC Genomics] 2022 Dec 09; Vol. 23 (1), pp. 817. Date of Electronic Publication: 2022 Dec 09.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

iPromoter-Seqvec: identifying promoters using bidirectional long short-term memory and sequence-embedded features.

  • Authors : Nguyen-Vo TH; School of Mathematics and Statistics, Victoria University of Wellington, Gate 7, Kelburn Parade, 6140, Wellington, New Zealand.; Trinh QH

Subjects: Memory, Short-Term* ; Software*; Animals

  • Source: BMC genomics [BMC Genomics] 2022 Oct 03; Vol. 23 (Suppl 5), pp. 681. Date of Electronic Publication: 2022 Oct 03.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

VisProDom: an interactive Shiny/R application for displaying protein domains with transcriptional features.

  • Authors : Wang H; Hubei Key Laboratory of Waterlogging Disaster and Agricultural Use of Wetland/Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education, Yangtze University, Jingzhou, 434000, China. .; Hubei Collaborative Innovation Center for Grain Industry, Yangtze University, Jingzhou, 434000, China. .

Subjects: Genome* ; Software*; Databases, Factual

  • Source: BMC genomics [BMC Genomics] 2022 Jun 27; Vol. 23 (1), pp. 472. Date of Electronic Publication: 2022 Jun 27.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

GenomicDistributions: fast analysis of genomic intervals with Bioconductor.

  • Authors : Kupkova K; Center for Public Health Genomics, University of Virginia, Charlottesville, USA.; Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, USA.

Subjects: Genomics* ; Software*; Chromatin Immunoprecipitation Sequencing

  • Source: BMC genomics [BMC Genomics] 2022 Apr 12; Vol. 23 (1), pp. 299. Date of Electronic Publication: 2022 Apr 12.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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Academic Journal

FindIT2: an R/Bioconductor package to identify influential transcription factor and targets based on multi-omics data.

  • Authors : Shang GD; National Key Laboratory of Plant Molecular Genetics (NKLPMG), CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai, 200032, China.; University of Chinese Academy of Sciences (UCAS), Shanghai, 200032, P. R. China.

Subjects: Software* ; Transcription Factors*/Transcription Factors*/Transcription Factors*/genetics; Chromatin Immunoprecipitation Sequencing

  • Source: BMC genomics [BMC Genomics] 2022 Apr 07; Vol. 23 (Suppl 1), pp. 272. Date of Electronic Publication: 2022 Apr 07.Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium:

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