{"id":23173,"date":"2022-05-18T12:54:34","date_gmt":"2022-05-18T10:54:34","guid":{"rendered":"https:\/\/www.idisantiago.es\/plataformas-de-apoyo-comun\/transcriptomics\/"},"modified":"2023-07-05T14:31:08","modified_gmt":"2023-07-05T12:31:08","slug":"transcriptomics","status":"publish","type":"page","link":"https:\/\/www.idisantiago.es\/en\/plataformas-de-apoyo-comun\/transcriptomics\/","title":{"rendered":"Transcriptomics"},"content":{"rendered":"<p>[et_pb_section fb_built=&#8221;1&#8243; admin_label=&#8221;T\u00edtulo&#8221; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; custom_margin=&#8221;64px||0px||false|false&#8221; custom_padding=&#8221;0px||||false|false&#8221; da_disable_devices=&#8221;off|off|off&#8221; locked=&#8221;off&#8221; collapsed=&#8221;on&#8221; global_colors_info=&#8221;{}&#8221; da_is_popup=&#8221;off&#8221; da_exit_intent=&#8221;off&#8221; da_has_close=&#8221;on&#8221; da_alt_close=&#8221;off&#8221; da_dark_close=&#8221;off&#8221; da_not_modal=&#8221;on&#8221; da_is_singular=&#8221;off&#8221; da_with_loader=&#8221;off&#8221; da_has_shadow=&#8221;on&#8221;][et_pb_row _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; width=&#8221;100%&#8221; custom_padding=&#8221;0px||||false|false&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_column type=&#8221;4_4&#8243; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;]<\/p>\n<p>[et_pb_post_title meta=&#8221;off&#8221; featured_image=&#8221;off&#8221; _builder_version=&#8221;4.14.1&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;][\/et_pb_post_title]<\/p>\n<p>[\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section fb_built=&#8221;1&#8243; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; custom_padding=&#8221;0px||||false|false&#8221; da_disable_devices=&#8221;off|off|off&#8221; global_colors_info=&#8221;{}&#8221; da_is_popup=&#8221;off&#8221; da_exit_intent=&#8221;off&#8221; da_has_close=&#8221;on&#8221; da_alt_close=&#8221;off&#8221; da_dark_close=&#8221;off&#8221; da_not_modal=&#8221;on&#8221; da_is_singular=&#8221;off&#8221; da_with_loader=&#8221;off&#8221; da_has_shadow=&#8221;on&#8221;][et_pb_row _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; width=&#8221;100%&#8221; custom_padding=&#8221;0px||||false|false&#8221; locked=&#8221;on&#8221; collapsed=&#8221;on&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_column type=&#8221;4_4&#8243; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_text _builder_version=&#8221;4.16&#8243; _dynamic_attributes=&#8221;link_option_url&#8221; _module_preset=&#8221;default&#8221; link_option_url=&#8221;@ET-DC@eyJkeW5hbWljIjp0cnVlLCJjb250ZW50IjoicG9zdF9saW5rX3VybF9wYWdlIiwic2V0dGluZ3MiOnsicG9zdF9pZCI6Ijk1MDAifX0=@&#8221; global_colors_info=&#8221;{}&#8221;]<\/p>\n<p>COMMON SUPPORT PLATFORMS<\/p>\n<p>[\/et_pb_text][\/et_pb_column][\/et_pb_row][et_pb_row column_structure=&#8221;2_3,1_3&#8243; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; width=&#8221;100%&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_column type=&#8221;2_3&#8243; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_toggle title=&#8221;Equipment&#8221; admin_label=&#8221;Equipamiento&#8221; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; body_font=&#8221;|300|||||||&#8221; global_colors_info=&#8221;{}&#8221;]<\/p>\n<p>The massive sequencing system (Next Generation Sequencing or NGS) has a wide range of applications, increasingly numerous, in all studies or research projects that involve nucleic acid analysis. Currently, this platform is equipped with an Illumina NextSeq 2000 System, which offers all the advantages of this leading technology and with which promising results are being achieved in recent years.<\/p>\n<p>[\/et_pb_toggle][et_pb_toggle title=&#8221;Description&#8221; admin_label=&#8221;Descripci\u00f3n&#8221; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; body_font=&#8221;|300|||||||&#8221; global_colors_info=&#8221;{}&#8221;]<\/p>\n<p>The technology used by the Illumina NextSeq2000 is based on sequencing by synthesis (SBS), where tagged nucleotides are tracked simultaneously with the copying of the DNA strand. \u200b<img loading=\"lazy\" decoding=\"async\" class=\"wp-image-15431 alignnone size-full\" src=\"https:\/\/www.idisantiago.es\/wp-content\/uploads\/2022\/03\/sequencing_genvip.jpg\" alt=\"\" width=\"202\" height=\"130\" \/> This technology allows millions of fragments to be sequenced massively and in parallel, improving the speed and accuracy of sequencing while reducing its cost. The Illumina NextSeq 2000 Sequencing System has been provided with a novel super-resolution optical system that produces high-precision image data with higher resolution and sensitivity than more traditional Illumina systems. This technology also provides greater sequencing flexibility, scalable to different production experimental needs, and adaptable to both conventional and emerging applications. (Video\u00a0https:\/\/youtu.be\/fCd6B5HRaZ8) The flexibility of the technology makes the platform adaptable to a wide range of applications and applicable to projects with diverse sequencing objectives: <strong>Transcriptome sequencing<\/strong> The Nextseq 2000 System offers great flexibility for RNA sequencing studies, which require different sequencing depths and read lengths depending on study complexity, size, and goals: \u2022 Total RNA sequencing. Analyze the coding regions and multiple forms of non-coding RNA to get a complete picture of the transcriptome. \u2022 mRNA sequencing. Detect and quantify new and known transcripts for complete and accurate expression profiles. \u2022 Gene expression profiles. It allows multiple RNA libraries to be sequenced together in a single sequencing run, obtaining a rapid picture of the most expressed genes with only a few reads per sample. \u2022 Targeted RNA sequencing. Select and sequence transcripts of specific interest for gene expression profiling studies. \u2022 Sequencing of small RNA (RNAs) and MicroRNA (miRNA). It allows querying thousands of RNA and microRNA sequences with high sensitivity. Sequencing of the human exome and genome of microorganisms \u2022 Sequencing of small genomes. It sequences the entire genome of a bacterium, virus, or other microbes. \u2022 Sequencing of the human exome. Captures and sequences the protein coding region of the genome, a cost-effective alternative to whole genome sequencing. <strong>Targeted panel sequencing<\/strong> The gene targeting and gene targeting panels sequence only genomic or transcriptomic regions of interest. They are useful tools to analyze specific mutations, mutational load, microsatellite instability, HLA genotyping, expression of the TCR repertoire or gene fusion profiles\u2026. Applications of targeted panel sequencing include: \u2022 Personalized genomic sequencing. Selection and sequencing of specific regions of the genome that have a specific research interest: for example, specific biological pathways or follow-up experiments from genome-wide association studies or whole genome sequencing. \u2022 Pre-designed panels for targeted gene sequencing. They contain fixed genomic regions or genes associated with a disease, phenotype, or biological pathway. They are available for research of various diseases like cancer, hereditary disorders, rare disorders, cardiac disorders, neurological disorders, immune diseases, etc. <strong>Other possible applications<\/strong> -Free circulating DNA sequencing and liquid biopsy analysis -Chromatin analysis (ChIP-Seq, ATAC-Seq) -DNA methylation sequencing -Sequencing of 16S ribosomal RNA (rRNA) and internal transcribed spacer (ITS) -Metagenomic profiles (metagenomics, metatranscriptomics) -Single cell DNA and RNA sequencing<\/p>\n<p>[\/et_pb_toggle][et_pb_toggle title=&#8221;Services&#8221; admin_label=&#8221;Servicios&#8221; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; body_font=&#8221;|300|||||||&#8221; global_colors_info=&#8221;{}&#8221;]<\/p>\n<p>Our service includes all the stages of support that your project needs, from consultancy and experimental advice, to technical support for the development of sequencing protocols, material management, sample analysis and the corresponding analysis of bioinformatic data for its publication. <strong>Experimental advice<\/strong> Our sequencing platform provides experimental advice for a wide variety of research projects that require: \u2022 Total RNA sequencing \u2022 mRNA sequencing \u2022 Sequencing of small RNAs and miRNAs \u2022 Gene expression profiles \u2022 Complete sequencing of small genomes \u2022Human whole exome sequencing (based on enrichment technology) \u2022 Sequencing of specific gene panels (based on PCR amplicon or enrichment technology) \u2022 Sequencing of ctDNA, Chip-Seq, ATAQ-seq and any other genomic application, with prior evaluation of the request. <strong>Technical support<\/strong> We offer technical support for the complete development of the sequencing protocol: \u2022 Experimental design of sequencing projects \u2022 Extraction of nucleic acids from different types of samples: blood, saliva, bone or tissue embedded in formalin fixed paraffin (FFPE). \u2022 Quality control and integrity of the samples \u2022 Preparation and quality control of the NGS libraries \u2022 Sequencing of NGS libraries <strong>Materials management<\/strong> We provide the management and ordering of the necessary reagents for the preparation of the NGS libraries, flow cells and cartridges for the required sequencing application. <strong>Bioinformatics data analysis<\/strong> We deliver the results in sequencing file formats containing the raw data and offer specialized processing and analysis of NGS data: quality control, de-multiplexing, alignment and post-analysis.<\/p>\n<p>[\/et_pb_toggle][et_pb_toggle title=&#8221;Fees&#8221; disabled_on=&#8221;off|off|off&#8221; admin_label=&#8221;Tarifas&#8221; _builder_version=&#8221;4.21.0&#8243; _module_preset=&#8221;default&#8221; body_font=&#8221;|300|||||||&#8221; hover_enabled=&#8221;0&#8243; global_colors_info=&#8221;{}&#8221; sticky_enabled=&#8221;0&#8243;]<\/p>\n<p><a href=\"https:\/\/www.idisantiago.es\/wp-content\/uploads\/2023\/07\/TARIFAS.Transcriptomics.JUN23_EN.pdf\"><span style=\"color: #808000;\"><b>Fees<\/b><\/span><\/a><\/p>\n<p>VAT not included<\/p>\n<p>[\/et_pb_toggle][\/et_pb_column][et_pb_column type=&#8221;1_3&#8243; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;][et_pb_text admin_label=&#8221;Contacto&#8221; _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; text_text_color=&#8221;#FFFFFF&#8221; header_text_color=&#8221;#FFFFFF&#8221; header_2_text_align=&#8221;left&#8221; header_2_text_color=&#8221;#FFFFFF&#8221; background_color=&#8221;#10294c&#8221; custom_margin=&#8221;0px||||false|false&#8221; custom_padding=&#8221;6px||0px|6px|false|false&#8221; locked=&#8221;on&#8221; global_colors_info=&#8221;{}&#8221;]<\/p>\n<h2>Contact<\/h2>\n<p>[\/et_pb_text][et_pb_text _builder_version=&#8221;4.16&#8243; _module_preset=&#8221;default&#8221; global_colors_info=&#8221;{}&#8221;]<\/p>\n<p><b>Isabel Ferreir\u00f3s Vidal <\/b><\/p>\n<p><span style=\"color: #0563c1;\"><u><a href=\"mailto:Isabel.Ferreiros.Vidal@sergas.es\"><span style=\"font-family: Segoe UI, serif;\"><span style=\"font-size: small;\">Isabel.Ferreiros.Vidal@sergas.es<\/span><\/span><\/a><\/u><\/span><\/p>\n<h6>\u200b<\/h6>\n<p>[\/et_pb_text][\/et_pb_column][\/et_pb_row][\/et_pb_section][et_pb_section fb_built=&#8221;1&#8243; admin_label=&#8221;Logos_internas&#8221; _builder_version=&#8221;4.14.7&#8243; _module_preset=&#8221;default&#8221; background_color=&#8221;RGBA(255,255,255,0)&#8221; custom_margin=&#8221;5px|||||&#8221; custom_padding=&#8221;27px||0px|||&#8221; da_disable_devices=&#8221;off|off|off&#8221; global_module=&#8221;11879&#8243; 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