siRNAs play a critical role in new therapies.
in these slides, we will learn how to design a siRNA.
if you have any question, you can e-mail me:
reza.rakhshi21@gmail.com
The document summarizes the mechanisms and differences between RNA interference (RNAi) and RNA activation (RNAa). RNAi involves short-term gene silencing through mRNA cleavage or translational repression in the cytoplasm, mediated by Argonaute 2. RNAa induces long-term gene activation through epigenetic changes and transcriptional activation in the nucleus. While RNAi has been well characterized at the molecular level, the mechanism of RNAa is not fully understood. RNAa has been shown to activate various tumor suppressor and stem cell genes in several human and animal cell lines.
This document outlines the key components and types of RNA, as well as the processes of transcription and translation. It begins by listing the main sections to be covered, including the components of RNA, types of RNA, transcription, translation, and a summary. It then provides brief explanations of RNA, transcription in prokaryotes, and translation, before concluding with a thank you and noting the end.
This document discusses the process of designing an miRNA. It is by Reza Rakhshi, a master's student in medical biotechnology. It explains how to find the sequence of a chosen miRNA, complete the reverse transcription sequence, and design the F plasmid sequence by selecting nucleotides from the 5' end of the miRNA sequence and adding nucleotides to balance the temperature with the R plasmid sequence.
RNAi is a highly specific post-transcriptional gene silencing process, a powerful tool for functional genomics. This guide includes protocol reviews, handy tips and troubleshooting help.
This document discusses new assays for microRNA (miRNA) research, including isolation, expression analysis, and functional analysis. It describes miRNA isolation kits that can purify miRNAs from various sample types. For expression analysis, it highlights real-time PCR-based miRNA assays, including miRNA PCR arrays that can profile hundreds of miRNAs simultaneously. It also discusses tools for identifying miRNA targets and analyzing miRNA function, such as miRNA mimics and inhibitors. Examples are given of how these assays have been used to study miRNAs in cancer and other diseases.
The document describes miScript miRNA PCR Arrays for analyzing miRNA expression patterns. It discusses miRNA biogenesis and function, and how the miScript system allows for genome-wide and pathway-focused miRNA analysis using a qPCR-based approach. The miScript arrays offer high reproducibility, sensitivity, and the ability to discover cancer-related and developmentally regulated miRNAs. They can be used to screen focused miRNA panels or conduct genome-wide screens to discover novel miRNA roles.
The document discusses using PCR arrays to profile gene expression and epigenetics. PCR arrays allow researchers to analyze expression of up to 84 genes related to a pathway or disease using real-time PCR. They include controls to check for genomic DNA contamination and assay performance. As an example, the document describes how a researcher could use a PCR array to compare gene expression between metastatic and non-metastatic breast tumor samples.
The document summarizes the mechanisms and differences between RNA interference (RNAi) and RNA activation (RNAa). RNAi involves short-term gene silencing through mRNA cleavage or translational repression in the cytoplasm, mediated by Argonaute 2. RNAa induces long-term gene activation through epigenetic changes and transcriptional activation in the nucleus. While RNAi has been well characterized at the molecular level, the mechanism of RNAa is not fully understood. RNAa has been shown to activate various tumor suppressor and stem cell genes in several human and animal cell lines.
This document outlines the key components and types of RNA, as well as the processes of transcription and translation. It begins by listing the main sections to be covered, including the components of RNA, types of RNA, transcription, translation, and a summary. It then provides brief explanations of RNA, transcription in prokaryotes, and translation, before concluding with a thank you and noting the end.
This document discusses the process of designing an miRNA. It is by Reza Rakhshi, a master's student in medical biotechnology. It explains how to find the sequence of a chosen miRNA, complete the reverse transcription sequence, and design the F plasmid sequence by selecting nucleotides from the 5' end of the miRNA sequence and adding nucleotides to balance the temperature with the R plasmid sequence.
RNAi is a highly specific post-transcriptional gene silencing process, a powerful tool for functional genomics. This guide includes protocol reviews, handy tips and troubleshooting help.
This document discusses new assays for microRNA (miRNA) research, including isolation, expression analysis, and functional analysis. It describes miRNA isolation kits that can purify miRNAs from various sample types. For expression analysis, it highlights real-time PCR-based miRNA assays, including miRNA PCR arrays that can profile hundreds of miRNAs simultaneously. It also discusses tools for identifying miRNA targets and analyzing miRNA function, such as miRNA mimics and inhibitors. Examples are given of how these assays have been used to study miRNAs in cancer and other diseases.
The document describes miScript miRNA PCR Arrays for analyzing miRNA expression patterns. It discusses miRNA biogenesis and function, and how the miScript system allows for genome-wide and pathway-focused miRNA analysis using a qPCR-based approach. The miScript arrays offer high reproducibility, sensitivity, and the ability to discover cancer-related and developmentally regulated miRNAs. They can be used to screen focused miRNA panels or conduct genome-wide screens to discover novel miRNA roles.
The document discusses using PCR arrays to profile gene expression and epigenetics. PCR arrays allow researchers to analyze expression of up to 84 genes related to a pathway or disease using real-time PCR. They include controls to check for genomic DNA contamination and assay performance. As an example, the document describes how a researcher could use a PCR array to compare gene expression between metastatic and non-metastatic breast tumor samples.
Advanced miRNA Expression Analysis: miRNA and its Role in Human Disease Webin...QIAGEN
miRNAs are small functional RNAs, which regulate gene expression post-transcriptionally. The miScript miRNA PCR Array System is a sensitive and reliable technology for detection of mature miRNAs in any laboratory. In this slideshow, the challenges of miRNA data analysis and solutions that the miScript miRNA PCR Arrays provide for researchers interested in identifying miRNA from cells, tissues and FFPE samples are described. You will also learn how to use our GeneGlobe Data Analysis Center to identify miRNAs that may be important in your favorite biological pathway or disease.
QIAGEN provides solutions for miRNA purification, quantification, and functional analysis. This includes miRNA purification kits, miRNA expression profiling tools like miScript miRNA PCR Arrays, and products for studying miRNA biogenesis and regulation. The miScript PCR System allows sensitive quantification and profiling of miRNA expression using real-time PCR. miScript miRNA PCR Arrays enable rapid profiling of mature miRNAs in miRNome and pathway-focused panels.
The document discusses RNA interference (RNAi) solutions for gene knockdown research. It describes using short interfering RNA (siRNA) and short hairpin RNA (shRNA) to temporarily or permanently suppress gene expression. Challenges of RNAi experiments include off-target effects and variability in knockdown efficiency. The document promotes solutions from QIAGEN, including validated siRNA and shRNA designs with controls, to help optimize RNAi experiments and reduce non-specific effects.
This document describes SureFIND Transcriptome PCR Arrays, which are ready-to-use cDNA panels that can identify the miRNAs, pathways, or transcription factors that regulate gene expression. Each array contains cDNA from cells treated with different factors, such as miRNA mimics or pathway inhibitors. The document outlines an example where a Transcriptome PCR Array identified three miRNAs - miR-193b, miR-138, and miR-373 - that regulate the INPPL1 gene. Users are encouraged to validate top hits from the arrays.
Technical Guide to Qiagen PCR Arrays - Download the GuideQIAGEN
Total RNA discovery with RT2 and miScript PCR Arrays : Explore the RNA universe - Whatever your destination within the RNA universe, QIAGEN will help you get there. The miRNeasy kits deliver pure, high-quality total RNA from a broad range of samples. The RT2 and miScript PCR arrays are a complete solution both for focused analysis of gene and microRNA expression and for validation of microarray and RNA sequencing experiments. Together with the powerful analytics tools of GeneGlobe® and QIAGEN Ingenuity® Pathway Analysis, these products give you a smooth path from your sample to high-quality results.
This document discusses RNA interference and provides information about QIAGEN's SureSilencing shRNA plasmids for gene knockdown experiments. It begins with an introduction to RNAi mechanisms and challenges. It then describes QIAGEN's SureSilencing shRNA plasmid solution, which features guaranteed high knockdown efficiency, multiple designs to control off-target effects, and experimental validation. The document reviews the plasmid features, design algorithm, applications and provides a workflow for gene knockdown experiments using the plasmids. It emphasizes the importance of including appropriate controls and validation steps to ensure successful RNAi experiments.
Principle and method of RNAi-Creative BiogeneDonglin Bao
In recent years, studies have shown that mRNA will occur specific degradation if dsRNA which is composed of sense RNA and antisense RNA from mRNA is transferred into the cell, eventually it leads to target genes silence. The post-transcriptional gene silencing (PTGS) is described as RNAi.
Please note: This presentation accompanies a recorded webinar at:
https://www1.gotomeeting.com/register/347794241
Biomarkers for studying gene regulation and cell function can be efficiently analyzed by multiplexed methods. Dr. Jim Lazar from OriGene Technologies will provide an overview of four different but related detection technologies that can be used to analyze genetic variants, microRNA expression, transcription factor binding, and protein expression on the Luminex xMAP platform. OriGene’s broad panel of assays and tools for discovery, analysis and validation of multiple classes of important biomarkers will allow researcher to develop more accurate descriptions of biologically complex systems.
This document provides an overview of RNA-seq analysis using the T-BioInfo platform. It describes analyzing RNA-seq data from breast cancer patient-derived xenograft models to identify differences between cancer subtypes and mouse models. The analysis includes mapping reads, quantifying gene and isoform expression, normalizing data, performing PCA, and identifying biomarker genes for breast cancer subtypes using factor regression analysis. The goal is to gain insights into cancer biology and identify diagnostic or therapeutic targets.
This document summarizes a study on two genome editing tools: CRISPR/Cas9 and RNAi. CRISPR/Cas9 originated from the adaptive immune system of bacteria and allows for easy editing of DNA at specific locations using an RNA guide and Cas9 enzyme. RNAi utilizes small interfering RNAs to degrade mRNA and silence genes. The document discusses the mechanisms, applications in agriculture, disease modeling and gene therapy, and compares the advantages of CRISPR/Cas9 over RNAi.
This document describes miScript miRNA PCR Arrays, which allow for the simultaneous detection of genome-wide or pathway-focused microRNA (miRNA) expression. It provides an overview of miRNA biology and research, details the miScript miRNA PCR Array system workflow from isolation to data analysis, and discusses applications in cancer research, development, differentiation, and genome-wide discovery. The system offers validated miRNA assays, controls, and optimized reagents to enable reproducible and reliable miRNA expression profiling from RNA samples.
Reporter assay and q pcr application 2012Elsa von Licy
This document summarizes a presentation on high-performance cell-based assay and qPCR technologies for pathway-focused research. The presentation overview discusses QIAGEN's SABiosciences portfolio, PCR arrays, Cignal and Cignal Lenti pathway reporters, and provides a summary. PCR arrays allow analysis of mRNA expression of up to 84 genes related to biological pathways in a single experiment. Cignal reporter assays use dual-luciferase reporters to study 45 signal transduction pathways. Cignal Lenti reporters use lentiviral delivery of luciferase or GFP reporters to study pathways in difficult to transfect cells like stem cells or primary cells.
Meeting the challenges of miRNA research: miRNA and its Role in Human Disease...QIAGEN
This document discusses a 4-part webinar series on microRNA (miRNA) research presented by QIAGEN. Part 1 will cover miRNA profiling from biofluids, part 2 will discuss challenges in miRNA research, part 3 will focus on advanced miRNA expression analysis, and part 4 will analyze functional analysis of miRNA. The document provides background on miRNAs and their role in gene expression and disease. It also describes QIAGEN products and solutions for miRNA sample preparation, real-time PCR, data analysis, and functional validation to help researchers overcome challenges in miRNA analysis.
RNA interference (RNAi) technology uses small interfering RNAs (siRNAs) or microRNAs (miRNAs) to block gene expression. The document discusses RNAi mechanisms, applications for cancer treatment and hypercholesterolemia, production of siRNAs and miRNAs, and potential human side effects. RNAi is a promising approach being studied for developing therapies against diseases like liver cancer, respiratory infections, and high cholesterol levels. Companies are investigating RNAi therapeutics and developing methods for effective in vivo delivery of siRNAs and miRNAs to target tissues.
1) The webinar discusses advanced microRNA (miRNA) expression analysis from experimental design through data analysis.
2) It focuses on using miScript miRNA PCR Arrays to profile miRNA expression and the ∆∆CT method to analyze the real-time PCR data.
3) The webinar provides examples of using the arrays to analyze miRNA expression differences between normal lung tissue and lung tumors, and in serum miRNA experiments.
Efficient and accurate analysis of non-coding RNAs with InSyBio ncRNASeqTheofilatos Konstantinos
Learn how to analyze your non coding RNA sequences with efficiency and accuracy!
>Superior performance on miRNA identification and miRNA target prediction.
>Integrated information on stem-loop and mature miRNAs.
>Association of proteins to miRNAs participating to their regulatory mechanism.
High data quality and accuracy are recognized characteristics of Sanger re-sequencing projects and are primary reasons that next generation sequencing projects compliment their results by capillary electrophoresis data validation. We have developed an on-line tool called Primer Designer™ to streamline the NGS-to-Sanger sequencing workflow by taking the laborious task of PCR primer design out of the hands of the researcher by providing pre-designed assays for the human exome. The primer design tool has been created to enable scientists using next generation sequencing to quickly confirm variants discovered in their work by providing the means to quickly search, order and receive suitable pre-designed PCR primers for Sanger sequencing. Using the Primer Designer™ tool to design M13-tailed and non-tailed PCR primers for Sanger sequencing we will demonstrate validation of 28-variants across 24-amplicons and 19-genes using the BDD, BDTv1.1 and BDTv3.1 sequencing chemistries on the 3500xl Genetic Analyzer capillary electrophoresis platform.
This document provides an overview of Serial Analysis of Gene Expression (SAGE). SAGE allows for the digital analysis of overall gene expression patterns in a sample by producing a snapshot of the mRNA population. It provides a quantitative and comprehensive expression profile. The document outlines the key principles and steps of the SAGE methodology, including isolating mRNA, synthesizing cDNA, ligating linkers, releasing tags, concatenating tags, and sequencing. It also discusses various applications and advances of SAGE, such as LongSAGE, CAGE, and SuperSAGE. SAGE is a powerful tool for studying gene expression, but it has some limitations regarding transcript identification and quantitation bias.
This slidedeck presents a simple and accurate real-time PCR system for relevant biological pathway- and disease-focused mRNA and long noncoding RNA (lncRNA) expression profiling. Learn about the stringent performance built into the technology to ensure its sensitivity, specificity, reproducibility and reliability. Application examples are also presented.
This document summarizes a webinar series on microRNAs and their role in human disease. It introduces microRNA biogenesis, function, and analysis. The webinar series consists of three parts that will cover microRNA biogenesis and function, advanced microRNA expression analysis, and profiling microRNA expression in different sample types for biomarker development. The document provides an agenda for the first webinar that will discuss microRNA background, genomics, role in disease, isolation technologies, quantification technologies, profiling technologies, and functionalization technologies. It also advertises a newly released product.
When I was asked to give a companion lecture in support of ‘The Philosophy of Science’ (https://shorturl.at/4pUXz) I decided not to walk through the detail of the many methodologies in order of use. Instead, I chose to employ a long standing, and ongoing, scientific development as an exemplar. And so, I chose the ever evolving story of Thermodynamics as a scientific investigation at its best.
Conducted over a period of >200 years, Thermodynamics R&D, and application, benefitted from the highest levels of professionalism, collaboration, and technical thoroughness. New layers of application, methodology, and practice were made possible by the progressive advance of technology. In turn, this has seen measurement and modelling accuracy continually improved at a micro and macro level.
Perhaps most importantly, Thermodynamics rapidly became a primary tool in the advance of applied science/engineering/technology, spanning micro-tech, to aerospace and cosmology. I can think of no better a story to illustrate the breadth of scientific methodologies and applications at their best.
Advanced miRNA Expression Analysis: miRNA and its Role in Human Disease Webin...QIAGEN
miRNAs are small functional RNAs, which regulate gene expression post-transcriptionally. The miScript miRNA PCR Array System is a sensitive and reliable technology for detection of mature miRNAs in any laboratory. In this slideshow, the challenges of miRNA data analysis and solutions that the miScript miRNA PCR Arrays provide for researchers interested in identifying miRNA from cells, tissues and FFPE samples are described. You will also learn how to use our GeneGlobe Data Analysis Center to identify miRNAs that may be important in your favorite biological pathway or disease.
QIAGEN provides solutions for miRNA purification, quantification, and functional analysis. This includes miRNA purification kits, miRNA expression profiling tools like miScript miRNA PCR Arrays, and products for studying miRNA biogenesis and regulation. The miScript PCR System allows sensitive quantification and profiling of miRNA expression using real-time PCR. miScript miRNA PCR Arrays enable rapid profiling of mature miRNAs in miRNome and pathway-focused panels.
The document discusses RNA interference (RNAi) solutions for gene knockdown research. It describes using short interfering RNA (siRNA) and short hairpin RNA (shRNA) to temporarily or permanently suppress gene expression. Challenges of RNAi experiments include off-target effects and variability in knockdown efficiency. The document promotes solutions from QIAGEN, including validated siRNA and shRNA designs with controls, to help optimize RNAi experiments and reduce non-specific effects.
This document describes SureFIND Transcriptome PCR Arrays, which are ready-to-use cDNA panels that can identify the miRNAs, pathways, or transcription factors that regulate gene expression. Each array contains cDNA from cells treated with different factors, such as miRNA mimics or pathway inhibitors. The document outlines an example where a Transcriptome PCR Array identified three miRNAs - miR-193b, miR-138, and miR-373 - that regulate the INPPL1 gene. Users are encouraged to validate top hits from the arrays.
Technical Guide to Qiagen PCR Arrays - Download the GuideQIAGEN
Total RNA discovery with RT2 and miScript PCR Arrays : Explore the RNA universe - Whatever your destination within the RNA universe, QIAGEN will help you get there. The miRNeasy kits deliver pure, high-quality total RNA from a broad range of samples. The RT2 and miScript PCR arrays are a complete solution both for focused analysis of gene and microRNA expression and for validation of microarray and RNA sequencing experiments. Together with the powerful analytics tools of GeneGlobe® and QIAGEN Ingenuity® Pathway Analysis, these products give you a smooth path from your sample to high-quality results.
This document discusses RNA interference and provides information about QIAGEN's SureSilencing shRNA plasmids for gene knockdown experiments. It begins with an introduction to RNAi mechanisms and challenges. It then describes QIAGEN's SureSilencing shRNA plasmid solution, which features guaranteed high knockdown efficiency, multiple designs to control off-target effects, and experimental validation. The document reviews the plasmid features, design algorithm, applications and provides a workflow for gene knockdown experiments using the plasmids. It emphasizes the importance of including appropriate controls and validation steps to ensure successful RNAi experiments.
Principle and method of RNAi-Creative BiogeneDonglin Bao
In recent years, studies have shown that mRNA will occur specific degradation if dsRNA which is composed of sense RNA and antisense RNA from mRNA is transferred into the cell, eventually it leads to target genes silence. The post-transcriptional gene silencing (PTGS) is described as RNAi.
Please note: This presentation accompanies a recorded webinar at:
https://www1.gotomeeting.com/register/347794241
Biomarkers for studying gene regulation and cell function can be efficiently analyzed by multiplexed methods. Dr. Jim Lazar from OriGene Technologies will provide an overview of four different but related detection technologies that can be used to analyze genetic variants, microRNA expression, transcription factor binding, and protein expression on the Luminex xMAP platform. OriGene’s broad panel of assays and tools for discovery, analysis and validation of multiple classes of important biomarkers will allow researcher to develop more accurate descriptions of biologically complex systems.
This document provides an overview of RNA-seq analysis using the T-BioInfo platform. It describes analyzing RNA-seq data from breast cancer patient-derived xenograft models to identify differences between cancer subtypes and mouse models. The analysis includes mapping reads, quantifying gene and isoform expression, normalizing data, performing PCA, and identifying biomarker genes for breast cancer subtypes using factor regression analysis. The goal is to gain insights into cancer biology and identify diagnostic or therapeutic targets.
This document summarizes a study on two genome editing tools: CRISPR/Cas9 and RNAi. CRISPR/Cas9 originated from the adaptive immune system of bacteria and allows for easy editing of DNA at specific locations using an RNA guide and Cas9 enzyme. RNAi utilizes small interfering RNAs to degrade mRNA and silence genes. The document discusses the mechanisms, applications in agriculture, disease modeling and gene therapy, and compares the advantages of CRISPR/Cas9 over RNAi.
This document describes miScript miRNA PCR Arrays, which allow for the simultaneous detection of genome-wide or pathway-focused microRNA (miRNA) expression. It provides an overview of miRNA biology and research, details the miScript miRNA PCR Array system workflow from isolation to data analysis, and discusses applications in cancer research, development, differentiation, and genome-wide discovery. The system offers validated miRNA assays, controls, and optimized reagents to enable reproducible and reliable miRNA expression profiling from RNA samples.
Reporter assay and q pcr application 2012Elsa von Licy
This document summarizes a presentation on high-performance cell-based assay and qPCR technologies for pathway-focused research. The presentation overview discusses QIAGEN's SABiosciences portfolio, PCR arrays, Cignal and Cignal Lenti pathway reporters, and provides a summary. PCR arrays allow analysis of mRNA expression of up to 84 genes related to biological pathways in a single experiment. Cignal reporter assays use dual-luciferase reporters to study 45 signal transduction pathways. Cignal Lenti reporters use lentiviral delivery of luciferase or GFP reporters to study pathways in difficult to transfect cells like stem cells or primary cells.
Meeting the challenges of miRNA research: miRNA and its Role in Human Disease...QIAGEN
This document discusses a 4-part webinar series on microRNA (miRNA) research presented by QIAGEN. Part 1 will cover miRNA profiling from biofluids, part 2 will discuss challenges in miRNA research, part 3 will focus on advanced miRNA expression analysis, and part 4 will analyze functional analysis of miRNA. The document provides background on miRNAs and their role in gene expression and disease. It also describes QIAGEN products and solutions for miRNA sample preparation, real-time PCR, data analysis, and functional validation to help researchers overcome challenges in miRNA analysis.
RNA interference (RNAi) technology uses small interfering RNAs (siRNAs) or microRNAs (miRNAs) to block gene expression. The document discusses RNAi mechanisms, applications for cancer treatment and hypercholesterolemia, production of siRNAs and miRNAs, and potential human side effects. RNAi is a promising approach being studied for developing therapies against diseases like liver cancer, respiratory infections, and high cholesterol levels. Companies are investigating RNAi therapeutics and developing methods for effective in vivo delivery of siRNAs and miRNAs to target tissues.
1) The webinar discusses advanced microRNA (miRNA) expression analysis from experimental design through data analysis.
2) It focuses on using miScript miRNA PCR Arrays to profile miRNA expression and the ∆∆CT method to analyze the real-time PCR data.
3) The webinar provides examples of using the arrays to analyze miRNA expression differences between normal lung tissue and lung tumors, and in serum miRNA experiments.
Efficient and accurate analysis of non-coding RNAs with InSyBio ncRNASeqTheofilatos Konstantinos
Learn how to analyze your non coding RNA sequences with efficiency and accuracy!
>Superior performance on miRNA identification and miRNA target prediction.
>Integrated information on stem-loop and mature miRNAs.
>Association of proteins to miRNAs participating to their regulatory mechanism.
High data quality and accuracy are recognized characteristics of Sanger re-sequencing projects and are primary reasons that next generation sequencing projects compliment their results by capillary electrophoresis data validation. We have developed an on-line tool called Primer Designer™ to streamline the NGS-to-Sanger sequencing workflow by taking the laborious task of PCR primer design out of the hands of the researcher by providing pre-designed assays for the human exome. The primer design tool has been created to enable scientists using next generation sequencing to quickly confirm variants discovered in their work by providing the means to quickly search, order and receive suitable pre-designed PCR primers for Sanger sequencing. Using the Primer Designer™ tool to design M13-tailed and non-tailed PCR primers for Sanger sequencing we will demonstrate validation of 28-variants across 24-amplicons and 19-genes using the BDD, BDTv1.1 and BDTv3.1 sequencing chemistries on the 3500xl Genetic Analyzer capillary electrophoresis platform.
This document provides an overview of Serial Analysis of Gene Expression (SAGE). SAGE allows for the digital analysis of overall gene expression patterns in a sample by producing a snapshot of the mRNA population. It provides a quantitative and comprehensive expression profile. The document outlines the key principles and steps of the SAGE methodology, including isolating mRNA, synthesizing cDNA, ligating linkers, releasing tags, concatenating tags, and sequencing. It also discusses various applications and advances of SAGE, such as LongSAGE, CAGE, and SuperSAGE. SAGE is a powerful tool for studying gene expression, but it has some limitations regarding transcript identification and quantitation bias.
This slidedeck presents a simple and accurate real-time PCR system for relevant biological pathway- and disease-focused mRNA and long noncoding RNA (lncRNA) expression profiling. Learn about the stringent performance built into the technology to ensure its sensitivity, specificity, reproducibility and reliability. Application examples are also presented.
This document summarizes a webinar series on microRNAs and their role in human disease. It introduces microRNA biogenesis, function, and analysis. The webinar series consists of three parts that will cover microRNA biogenesis and function, advanced microRNA expression analysis, and profiling microRNA expression in different sample types for biomarker development. The document provides an agenda for the first webinar that will discuss microRNA background, genomics, role in disease, isolation technologies, quantification technologies, profiling technologies, and functionalization technologies. It also advertises a newly released product.
When I was asked to give a companion lecture in support of ‘The Philosophy of Science’ (https://shorturl.at/4pUXz) I decided not to walk through the detail of the many methodologies in order of use. Instead, I chose to employ a long standing, and ongoing, scientific development as an exemplar. And so, I chose the ever evolving story of Thermodynamics as a scientific investigation at its best.
Conducted over a period of >200 years, Thermodynamics R&D, and application, benefitted from the highest levels of professionalism, collaboration, and technical thoroughness. New layers of application, methodology, and practice were made possible by the progressive advance of technology. In turn, this has seen measurement and modelling accuracy continually improved at a micro and macro level.
Perhaps most importantly, Thermodynamics rapidly became a primary tool in the advance of applied science/engineering/technology, spanning micro-tech, to aerospace and cosmology. I can think of no better a story to illustrate the breadth of scientific methodologies and applications at their best.
Remote Sensing and Computational, Evolutionary, Supercomputing, and Intellige...University of Maribor
Slides from talk:
Aleš Zamuda: Remote Sensing and Computational, Evolutionary, Supercomputing, and Intelligent Systems.
11th International Conference on Electrical, Electronics and Computer Engineering (IcETRAN), Niš, 3-6 June 2024
Inter-Society Networking Panel GRSS/MTT-S/CIS Panel Session: Promoting Connection and Cooperation
https://www.etran.rs/2024/en/home-english/
Unlocking the mysteries of reproduction: Exploring fecundity and gonadosomati...AbdullaAlAsif1
The pygmy halfbeak Dermogenys colletei, is known for its viviparous nature, this presents an intriguing case of relatively low fecundity, raising questions about potential compensatory reproductive strategies employed by this species. Our study delves into the examination of fecundity and the Gonadosomatic Index (GSI) in the Pygmy Halfbeak, D. colletei (Meisner, 2001), an intriguing viviparous fish indigenous to Sarawak, Borneo. We hypothesize that the Pygmy halfbeak, D. colletei, may exhibit unique reproductive adaptations to offset its low fecundity, thus enhancing its survival and fitness. To address this, we conducted a comprehensive study utilizing 28 mature female specimens of D. colletei, carefully measuring fecundity and GSI to shed light on the reproductive adaptations of this species. Our findings reveal that D. colletei indeed exhibits low fecundity, with a mean of 16.76 ± 2.01, and a mean GSI of 12.83 ± 1.27, providing crucial insights into the reproductive mechanisms at play in this species. These results underscore the existence of unique reproductive strategies in D. colletei, enabling its adaptation and persistence in Borneo's diverse aquatic ecosystems, and call for further ecological research to elucidate these mechanisms. This study lends to a better understanding of viviparous fish in Borneo and contributes to the broader field of aquatic ecology, enhancing our knowledge of species adaptations to unique ecological challenges.
The technology uses reclaimed CO₂ as the dyeing medium in a closed loop process. When pressurized, CO₂ becomes supercritical (SC-CO₂). In this state CO₂ has a very high solvent power, allowing the dye to dissolve easily.
Phenomics assisted breeding in crop improvementIshaGoswami9
As the population is increasing and will reach about 9 billion upto 2050. Also due to climate change, it is difficult to meet the food requirement of such a large population. Facing the challenges presented by resource shortages, climate
change, and increasing global population, crop yield and quality need to be improved in a sustainable way over the coming decades. Genetic improvement by breeding is the best way to increase crop productivity. With the rapid progression of functional
genomics, an increasing number of crop genomes have been sequenced and dozens of genes influencing key agronomic traits have been identified. However, current genome sequence information has not been adequately exploited for understanding
the complex characteristics of multiple gene, owing to a lack of crop phenotypic data. Efficient, automatic, and accurate technologies and platforms that can capture phenotypic data that can
be linked to genomics information for crop improvement at all growth stages have become as important as genotyping. Thus,
high-throughput phenotyping has become the major bottleneck restricting crop breeding. Plant phenomics has been defined as the high-throughput, accurate acquisition and analysis of multi-dimensional phenotypes
during crop growing stages at the organism level, including the cell, tissue, organ, individual plant, plot, and field levels. With the rapid development of novel sensors, imaging technology,
and analysis methods, numerous infrastructure platforms have been developed for phenotyping.
The binding of cosmological structures by massless topological defectsSérgio Sacani
Assuming spherical symmetry and weak field, it is shown that if one solves the Poisson equation or the Einstein field
equations sourced by a topological defect, i.e. a singularity of a very specific form, the result is a localized gravitational
field capable of driving flat rotation (i.e. Keplerian circular orbits at a constant speed for all radii) of test masses on a thin
spherical shell without any underlying mass. Moreover, a large-scale structure which exploits this solution by assembling
concentrically a number of such topological defects can establish a flat stellar or galactic rotation curve, and can also deflect
light in the same manner as an equipotential (isothermal) sphere. Thus, the need for dark matter or modified gravity theory is
mitigated, at least in part.
The ability to recreate computational results with minimal effort and actionable metrics provides a solid foundation for scientific research and software development. When people can replicate an analysis at the touch of a button using open-source software, open data, and methods to assess and compare proposals, it significantly eases verification of results, engagement with a diverse range of contributors, and progress. However, we have yet to fully achieve this; there are still many sociotechnical frictions.
Inspired by David Donoho's vision, this talk aims to revisit the three crucial pillars of frictionless reproducibility (data sharing, code sharing, and competitive challenges) with the perspective of deep software variability.
Our observation is that multiple layers — hardware, operating systems, third-party libraries, software versions, input data, compile-time options, and parameters — are subject to variability that exacerbates frictions but is also essential for achieving robust, generalizable results and fostering innovation. I will first review the literature, providing evidence of how the complex variability interactions across these layers affect qualitative and quantitative software properties, thereby complicating the reproduction and replication of scientific studies in various fields.
I will then present some software engineering and AI techniques that can support the strategic exploration of variability spaces. These include the use of abstractions and models (e.g., feature models), sampling strategies (e.g., uniform, random), cost-effective measurements (e.g., incremental build of software configurations), and dimensionality reduction methods (e.g., transfer learning, feature selection, software debloating).
I will finally argue that deep variability is both the problem and solution of frictionless reproducibility, calling the software science community to develop new methods and tools to manage variability and foster reproducibility in software systems.
Exposé invité Journées Nationales du GDR GPL 2024
Current Ms word generated power point presentation covers major details about the micronuclei test. It's significance and assays to conduct it. It is used to detect the micronuclei formation inside the cells of nearly every multicellular organism. It's formation takes place during chromosomal sepration at metaphase.
The debris of the ‘last major merger’ is dynamically youngSérgio Sacani
The Milky Way’s (MW) inner stellar halo contains an [Fe/H]-rich component with highly eccentric orbits, often referred to as the
‘last major merger.’ Hypotheses for the origin of this component include Gaia-Sausage/Enceladus (GSE), where the progenitor
collided with the MW proto-disc 8–11 Gyr ago, and the Virgo Radial Merger (VRM), where the progenitor collided with the
MW disc within the last 3 Gyr. These two scenarios make different predictions about observable structure in local phase space,
because the morphology of debris depends on how long it has had to phase mix. The recently identified phase-space folds in Gaia
DR3 have positive caustic velocities, making them fundamentally different than the phase-mixed chevrons found in simulations
at late times. Roughly 20 per cent of the stars in the prograde local stellar halo are associated with the observed caustics. Based
on a simple phase-mixing model, the observed number of caustics are consistent with a merger that occurred 1–2 Gyr ago.
We also compare the observed phase-space distribution to FIRE-2 Latte simulations of GSE-like mergers, using a quantitative
measurement of phase mixing (2D causticality). The observed local phase-space distribution best matches the simulated data
1–2 Gyr after collision, and certainly not later than 3 Gyr. This is further evidence that the progenitor of the ‘last major merger’
did not collide with the MW proto-disc at early times, as is thought for the GSE, but instead collided with the MW disc within
the last few Gyr, consistent with the body of work surrounding the VRM.
Describing and Interpreting an Immersive Learning Case with the Immersion Cub...Leonel Morgado
Current descriptions of immersive learning cases are often difficult or impossible to compare. This is due to a myriad of different options on what details to include, which aspects are relevant, and on the descriptive approaches employed. Also, these aspects often combine very specific details with more general guidelines or indicate intents and rationales without clarifying their implementation. In this paper we provide a method to describe immersive learning cases that is structured to enable comparisons, yet flexible enough to allow researchers and practitioners to decide which aspects to include. This method leverages a taxonomy that classifies educational aspects at three levels (uses, practices, and strategies) and then utilizes two frameworks, the Immersive Learning Brain and the Immersion Cube, to enable a structured description and interpretation of immersive learning cases. The method is then demonstrated on a published immersive learning case on training for wind turbine maintenance using virtual reality. Applying the method results in a structured artifact, the Immersive Learning Case Sheet, that tags the case with its proximal uses, practices, and strategies, and refines the free text case description to ensure that matching details are included. This contribution is thus a case description method in support of future comparative research of immersive learning cases. We then discuss how the resulting description and interpretation can be leveraged to change immersion learning cases, by enriching them (considering low-effort changes or additions) or innovating (exploring more challenging avenues of transformation). The method holds significant promise to support better-grounded research in immersive learning.
ESPP presentation to EU Waste Water Network, 4th June 2024 “EU policies driving nutrient removal and recycling
and the revised UWWTD (Urban Waste Water Treatment Directive)”
2. Find CDS Sequence:
1. Go NCBI
2. Choose Nucleotide Database
3. Write your Gene name
4. Active mRNA and Ref seq
5. Extract CDS
Reza Rakhshi, Master student of Medical Biotechnology
9. Create siRNA- Results:
Reza Rakhshi, Master student of Medical Biotechnology
1. Good seq has AT
at 𝟑′ and CG at 𝟓′
2. Good seq must
not repeated seq
Seem good items
10. Analyse seq:
– First of all we must get antisense seq from sense seq.
– Use Gene Runner App for this work
– Then use Oligo analyser App.
Reza Rakhshi, Master student of Medical Biotechnology
Antisense seq
Sense seq
11. Analyse seq:
Reza Rakhshi, Master student of Medical Biotechnology
Paste Antisense seq
and analye frequent
options
18. Find siRNA in whole genome
– We need Gene Runner App.
1. Paste whole mRNA
2. Press Ctrl + F and find siRNa seq (sense seq)
3. Find your siRNA in RNA Fold pic
Reza Rakhshi, Master student of Medical Biotechnology
20. Reza Rakhshi, Master student of Medical Biotechnology
Start nt
(1197)
finish nt
(1221)
Better
than this
sequence
exist in
loop
because
your siRNA
can stick
easily to it.