Transcriptome Sequencing
Identification of novel fusion genes in lung cancer using breakpoint assembly of transcriptome sequencing data
... TRUP: A pipeline for detecting fusion genes in cancer In order to detect fusion transcripts from PE RNA-seq data, we need to identify the fusion point from the se- quencing read alignments. Discordant mapping of mate ...
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Transcriptome sequencing identified hub genes for hepatocellular carcinoma by weighted-gene co-expression analysis
... matched cirrhotic tissues using transcriptome sequencing. We identified 747 DEGs and eight novel significantly differentially expressed lncRNA transcripts. The weighted gene co-expression network analysis ...
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Transcriptome sequencing reveals altered long intergenic non coding RNAs in lung cancer
... available transcriptome sequencing data from a cohort of 567 adenocarcinoma and squamous cell carcinoma ...exome sequencing data reveals that expression levels of many LCALs have significant ...
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Characterization of new microsatellite markers based on the transcriptome sequencing of Clematis finetiana
... Total RNA was isolated using the TRIzol reagent (Invitro- gen, Carlsbad, CA, USA) and RNeasy® mini kit (Qiagen, Valencia, CA) according to the manufacturer’s protocol. The quality and concentration of RNA were assessed ...
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Deep transcriptome sequencing provides new insights into the structural and functional organization of the wheat genome
... a transcriptome atlas for this chromosome, deep transcriptome sequencing was con- ducted in duplicates in 15 wheat samples corresponding to five different organs (leaf, shoot, root, spike, and grain) ...
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Exome and transcriptome sequencing identifies loss of <em>PDLIM2</em> in metastatic colorectal cancers
... whole transcriptome sequencing was performed using a Truseq RNA sample preparation v2 kit ...Qubit. Sequencing of the transcriptome library was carried out using the 100 bp paired-end mode of ...
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Whole-exome and transcriptome sequencing of refractory diffuse large B-cell lymphoma
... Diffuse large B-cell lymphoma (DLBCL) is the most common type of non-Hodgkin lymphoma. Although rituximab therapy improves clinical outcome, some patients develop resistant DLBCL; however, the genetic alterations in ...
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Identification of key genes and pathways involved in response to pain in goat and sheep by transcriptome sequencing
... In the present study, we investigated the mechanism underlying the response to pain in goat and sheep through transcriptome sequencing using DRG tissues of CFA-induced sheep and goats and subsequent ...
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Transcriptome Sequencing Demonstrates that Human Papillomavirus Is Not Active in Cutaneous Squamous Cell Carcinoma
... The potential oncogenicity of HPV viruses in our samples was assessed in terms of viral gene expression by mRNA-transcriptome sequencing (mRNA-seq). Thirty-one cuSCC tumors (10 KA type) were assayed by ...
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Strategies for wheat stripe rust pathogenicity identified by transcriptome sequencing
... Illumina-based transcriptome sequencing allowed the prediction of haustorial secreted proteins (HSP), a set of genes enriched in effector candidates found to be specifically- or highly-expressed in ...
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Transcriptome sequencing of neurologic diseases associated genes in HHV-6A infected human astrocyte
... Human Herpesvirus 6 (HHV-6) has been involved in the development of several central nervous system (CNS) diseases, such as Alzheimer’s disease, multiple sclerosis and glioma. In order to identify the pathogenic mechanism ...
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Whole-exome and whole-transcriptome sequencing of canine mammary gland tumors
... Studies of naturally occurring cancers in dogs, which share many genetic and environmental factors with humans, provide valuable information as a comparative model for studying the mechanisms of human cancer ...
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De novo transcriptome sequencing and sequence analysis of the malaria vector Anopheles sinensis (Diptera: Culicidae)
... next-generation sequencing (NGS) and assembly algorithm rapidly promote the development of transcriptome sequencing (RNA-seq), which can recon- struct the entire transcriptome in a selected ...
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Whole transcriptome sequencing identifies tumor-specific mutations in human oral squamous cell carcinoma
... There are six genes (TAF1L, ANKRA2, STOML1, PPP1R26, NUP37, and GTF2H5) identified in both SMGs and TDGs, which constitute the prioritized candidates for de- tailed functional dissection. Of them, five (TAF1L, ANKRA2, ...
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Breaking the 1000 gene barrier for Mimivirus using ultra deep genome and transcriptome sequencing
... ™ sequencing of total ...barcoded transcriptome libraries con- structed at various time during the entire Mimivirus infection cycle using 1 μ g of total RNA from Acantha- moeba castellanii cells, each with ...
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De novo transcriptome sequencing and analysis of the juvenile and adult stages of Fasciola gigantica
... infection in domestic cats, including novel miRNAs, involved in host cell cyclin, apoptosis and... gondii infection in the cat livers.[r] ...
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Transcriptome sequencing of lncRNA, miRNA, mRNA and interaction network constructing in coronary heart disease
... generation sequencing and microarray profiling has led to the screening and discovery of large numbers of dif- ferentially expressed (DE) ncRNAs that participate in the development of CVD, and has helped to ...
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Characterisation of retroviruses in the horse genome and their transcriptional activity via transcriptome sequencing
... Genus gamma gamma gamma epsilon epsilon gamma gamma beta epsilon gamma gamma gamma gamma gamma gamma gamma gamma gamma gamma gamma epsilon epsilon gamma gamma gamma gamma gamma gamma gam[r] ...
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Transcriptome sequencing of Festulolium accessions under salt stress
... further sequencing and annotation of FL transcriptome is needed to characterize these tran- scripts and better understand salt stress-related pathways in FL ...
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The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the Functional Diversity of Eukaryotic Life in the Oceans through Transcriptome Sequencing
... acid sequencing, such as metagenomics or metatranscriptomics, promises functional analysis of microbial communities as a whole, without prior knowledge of which organisms are in the environment or exactly how they ...
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