scholarly journals Transcriptome analysis of rice mature root tissue and root tips in early development by massive parallel sequencing

2012 ◽  
Vol 63 (5) ◽  
pp. 2141-2157 ◽  
Author(s):  
T. Kyndt ◽  
S. Denil ◽  
A. Haegeman ◽  
G. Trooskens ◽  
T. De Meyer ◽  
...  
Keyword(s):  
Early Development ◽  
Transcriptome Analysis ◽  
Root Tissue ◽  
Massive Parallel Sequencing ◽  
Root Tips ◽  
Parallel Sequencing ◽  
Mature Root

Exploring the usefulness of microhaplotypes in forensic identification using massive parallel sequencing technology

2020 ◽  
Vol 140 (1) ◽  
Author(s):  
Chiara Turchi ◽  
Filomena Melchionda ◽  
Mauro Pesaresi ◽  
Eleonora Ciarimboli ◽  
Carla Bini ◽  
...  
Keyword(s):  
Forensic Identification ◽  
Massive Parallel Sequencing ◽  
Sequencing Technology ◽  
Parallel Sequencing

scholarly journals Massive parallel sequencing in a family with rectal cancer

2021 ◽  
Vol 19 (1) ◽  
Author(s):  
Karin Wallander ◽  
Jessada Thutkawkorapin ◽  
Ellika Sahlin ◽  
Annika Lindblom ◽  
Kristina Lagerstedt-Robinson
Keyword(s):  
Rectal Cancer ◽  
Genetic Variant ◽  
Family Members ◽  
Wnt Signaling Pathway ◽  
Massive Parallel Sequencing ◽  
Whole Genome Sequencing Data ◽  
Sequencing Data ◽  
Cancer Syndrome ◽  
Parallel Sequencing ◽  
Missense Variants

Abstract Background We have previously reported a family with a suspected autosomal dominant rectal and gastric cancer syndrome without any obvious causative genetic variant. Here, we focused the study on a potentially isolated rectal cancer syndrome in this family. Methods We included seven family members (six obligate carriers). Whole-exome sequencing and whole-genome sequencing data were analyzed and filtered for shared coding and splicing sequence and structural variants among the affected individuals. Results When considering family members with rectal cancer or advanced adenomas as affected, we found six new potentially cancer-associated variants in the genes CENPB, ZBTB20, CLINK, LRRC26, TRPM1, and NPEPL1. All variants were missense variants and none of the genes have previously been linked to inherited rectal cancer. No structural variant was found. Conclusion By massive parallel sequencing in a family suspected of carrying a highly penetrant rectal cancer predisposing genetic variant, we found six genetic missense variants with a potential connection to the rectal cancer in this family. One of them could be a high-risk genetic variant, or one or more of them could be low risk variants. The p.(Glu438Lys) variant in the CENPB gene was found to be of particular interest. The CENPB protein binds DNA and helps form centromeres during mitosis. It is involved in the WNT signaling pathway, which is critical for colorectal cancer development and its role in inherited rectal cancer needs to be further examined.

scholarly journals Forensic transcriptome analysis using massively parallel sequencing

2021 ◽  
pp. 102486
Author(s):  
Cordula Haas ◽  
Jacqueline Neubauer ◽  
Andrea Patrizia Salzmann ◽  
Erin Hanson ◽  
Jack Ballantyne
Keyword(s):  
Transcriptome Analysis ◽  
Massively Parallel Sequencing ◽  
Massively Parallel ◽  
Parallel Sequencing

scholarly journals Analysis of age-dependent DNA methylation changes in plucked hair samples using massive parallel sequencing

Rechtsmedizin ◽  
2021 ◽  
Author(s):  
Jana Naue ◽  
Julia Winkelmann ◽  
Ulrike Schmidt ◽  
Sabine Lutz-Bonengel
Keyword(s):  
Dna Methylation ◽  
Forensic Genetics ◽  
Methylation Pattern ◽  
Massive Parallel Sequencing ◽  
Degraded Dna ◽  
Tissue Cell ◽  
Sample Type ◽  
Parallel Sequencing ◽  
Hair Samples ◽  
Age Dependent

AbstractThe analysis of age-dependent DNA methylation changes is a valuable tool in epigenetic research and forensic genetics. With some exceptions, most studies in the past concentrated on the analysis of blood, buccal, and saliva samples. Another important sample type in forensic investigations is hair, where age-dependent DNA methylation has not been investigated so far. In this pilot study a deeper look was taken at the possibilities and challenges of DNA methylation analysis in hair. The DNA methylation of selected age-dependent 5’-C-phosphate-G‑3’ (CpG) sites were characterized for their potential use as a biomarker for age prediction using plucked hair samples and massive parallel sequencing. Plucked hair roots of 49 individuals were included in the study. The DNA methylation of 31 hairs was successfully analyzed. The DNA methylation pattern of 10 loci, including ELOVL2, F5, KLF14, and TRIM59, was determined by amplicon-based massive parallel sequencing. Age-dependent changes were found for several markers. The results demonstrate the possible use of already established age-dependent markers but at the same time they have tissue/cell type-specific characteristics. Special challenges such as low amounts of DNA and degraded DNA as well as the possible heterogeneous cellular composition of plucked hair samples, have to be considered.

scholarly journals Optimizing a Massive Parallel Sequencing Workflow for Quantitative miRNA Expression Analysis

PLoS ONE ◽  
2012 ◽  
Vol 7 (2) ◽  
pp. e31630 ◽  
Author(s):  
Francesca Cordero ◽  
Marco Beccuti ◽  
Maddalena Arigoni ◽  
Susanna Donatelli ◽  
Raffaele A. Calogero
Keyword(s):  
Expression Analysis ◽  
Mirna Expression ◽  
Massive Parallel Sequencing ◽  
Parallel Sequencing

scholarly journals Microfluidic PCR Combined with Pyrosequencing for Identification of Allelic Variants with Phenotypic Associations among Targeted Salmonella Genes

2012 ◽  
Vol 78 (20) ◽  
pp. 7480-7482 ◽  
Author(s):  
Min Yue ◽  
Robert Schmieder ◽  
Robert A. Edwards ◽  
Shelley C. Rankin ◽  
Dieter M. Schifferli
Keyword(s):  
Genetic Variation ◽  
Antimicrobial Resistance ◽  
Host Species ◽  
Massive Parallel Sequencing ◽  
Allelic Variants ◽  
Parallel Sequencing ◽  
Content Type ◽  
Potential Applications ◽  
Fimbrial Adhesins ◽  
Diagnostic Microbiology

ABSTRACTA novel targeted massive parallel sequencing approach identified genetic variation in eight known or predicted fimbrial adhesins for 46Salmonellastrains. The results highlight associations between specific adhesin alleles, host species, and antimicrobial resistance. The differentiation of allelic variants has potential applications for diagnostic microbiology and epidemiological investigations.

scholarly journals Contribution of Massive Parallel Sequencing to Diagnosis of Hereditary Ovarian Cancer in the Czech Republic

2019 ◽  
Vol 32 (Suppl 2) ◽  
Author(s):  
Jana Soukupová ◽  
Klára Lhotová ◽  
Petra Zemánková ◽  
Michal Vočka ◽  
Markéta Janatová ◽  
...  
Keyword(s):  
Ovarian Cancer ◽  
Czech Republic ◽  
Massive Parallel Sequencing ◽  
Hereditary Ovarian Cancer ◽  
The Czech Republic ◽  
Parallel Sequencing
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