Tag: qPCR

Endogenous Coriobacteriaceae enriched by a high-fat diet promotes colorectal tumorigenesis through the CPT1A-ERK axis

Bacteria Strain Cori.ST1911 was isolated from fresh stool of 20-week-old C57/BL6J mice fed a HFD at the Animal Center of the West China Hospital of Sichuan University. Briefly, faecal particles were ground with a glass grinding rod and suspended in sterile phosphate-buffered saline (PBS). After gradient dilution, the suspension was…

Continue Reading Endogenous Coriobacteriaceae enriched by a high-fat diet promotes colorectal tumorigenesis through the CPT1A-ERK axis

Proteomic analysis of SARS-CoV-2 particles unveils a key role of G3BP proteins in viral assembly

Capturing proteins associated with SARS-CoV-2 virions To identify host cell proteins potentially present in extracellular SARS-CoV-2 virions, viral particles were produced from two lung epithelial cell models, A549 cells overexpressing ACE2 receptor (A549-ACE2) and Calu-3 cells that naturally express ACE2 receptor and TMPRSS2. Following infection with the D614G SARS-CoV-2 strain32,…

Continue Reading Proteomic analysis of SARS-CoV-2 particles unveils a key role of G3BP proteins in viral assembly

Detection of DNA methylation signatures through the lens of genomic imprinting

Animals and samples The study included 10 pigs, 8 pigs were bred at the INRAE experimental farm (doi.org/doi.org/10.15454/1.5572415481185847E12) and 2 pigs come from breeding organizations in accordance with the French and European legislation on animal welfare. The animals belong to the same family, except for one LW animal. Animals were…

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miR-195b is required for proper cellular homeostasis in the elderly

Expression pattern of miR-195 during embryonic development We analyzed the expression pattern of miR-195 by in situ hybridization at two distinct developmental stages in mouse embryos. Whole-mount in situ hybridization at E10.5, demonstrated a wide expression of miR-195 along the entire embryo, including the central nervous system, the cardiopharyngeal area,…

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Understanding the Impact of Temperate Bacteriophages on Their Lysogens Through Transcriptomics

This protocol enables the impact of prophages on their hosts to be revealed. Bacterial cultures are synchronized using conditions that best support the lysogenic state, limiting spontaneous induction. RT-qPCR unequivocally distinguishes prophage-restricted genes and those uncoupled from phage control from those that are expressed during the lytic replication cycle. Prophages…

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IKK gamma (IKBKG) Human shRNA Plasmid Kit (Locus ID 8517)

Product Data Locus ID 8517 Synonyms AMCBX1; EDAID1; FIP-3; FIP3; Fip3p; IKK-gamma; IKKAP1; IKKG; IMD33; IP; IP1; IP2; IPD2; NEMO; ZC2HC9 Vector pGFP-C-shLenti E. coli Selection Chloramphenicol (34 ug/ml) Mammalian Cell Selection Puromycin Format Lentiviral plasmids Kit Components IKBKG – Human, 4 unique 29mer shRNA constructs in lentiviral GFP vector(Gene…

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cfDNA Standards For Molecular Testing

Multiplexed ctDNA fragments (~150bp) mixed with nucleosomally fragmented wildtype cfDNA background in human plasma. The cell-derived ctDNA fragments are generated by Anchor’s unique multiplexed gene-editing method and are nucleosomally fragmented to around 150bp. The cell-derived variants are suitable for both the amplicon-based and capture-based methods. The synthetic ctDNA fragments are…

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ZCWCC1 (MORC2) Human shRNA Lentiviral Particle (Locus)

Product Data Locus ID 22880 Synonyms CMT2Z; DIGFAN; ZCW3; ZCWCC1 Vector pGFP-C-shLenti Format Lentiviral particles RefSeq NM_001303256, NM_001303257, NM_014941, NM_014941.1, NM_014941.2, NM_014941.3, NM_001303257.1, NM_001303257.2, NM_001303256.1, NM_001303256.2, BC019257, BC136782, BC141657, BM683680, NM_001303256.3 UniProt ID Q9Y6X9 Summary This gene encodes a member of the Microrchidia (MORC) protein superfamily. The encoded protein is…

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Development and evaluation of a CRISPR-Cas13a system-based diagnostic for hepatitis E virus

Objectives: Hepatitis E virus (HEV) is the leading cause of acute viral hepatitis worldwide. HEV RNA detection is the gold standard for HEV infection diagnosis and PCR methods are commonly used but are usually time-consuming and expensive, resulting in low detection efficiency and coverage, especially in low-income areas. Here, we…

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FRK Human shRNA Lentiviral Particle (Locus ID 2444) Clinisciences

Product Data Locus ID 2444 Synonyms GTK; PTK5; RAK Vector pGFP-C-shLenti Format Lentiviral particles RefSeq NM_002031, NM_002031.1, NM_002031.2, BC012916, BC012916.1, NM_002031.3 UniProt ID P42685 Summary The protein encoded by this gene belongs to the TYR family of protein kinases. This tyrosine kinase is a nuclear protein and may function during…

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csi-miR-96-5p delivered by Clonorchis sinensis extracellular vesicles promotes intrahepatic cholangiocarcinoma proliferation and migration via the ferroptosis-related PTEN/SLC7A11/GPX4 axis | Parasites & Vectors

Human tissue samples The preoperative diagnosis of CS mainly relies on stool microscopy, enzyme-linked immunosorbent assay, or endoscopy. Fresh liver and intrahepatic bile duct specimens were collected from ICC patients with (CS-ICC group) and without (NC-ICC group) CS infection during partial hepatectomy at the First Hospital of Jilin University. Tumor tissues…

Continue Reading csi-miR-96-5p delivered by Clonorchis sinensis extracellular vesicles promotes intrahepatic cholangiocarcinoma proliferation and migration via the ferroptosis-related PTEN/SLC7A11/GPX4 axis | Parasites & Vectors

Apoptosis-resistant megakaryocytes produce large and hyperreactive platelets in response to radiation injury | Military Medical Research

Animals C57BL/6-Tg (Pf4-icre) Q3Rsko/J (Pf4-Cre) mice were purchased from the Jackson Laboratory (Bar Harbor, ME, USA). B6;129-Tmem173tm1(flox)Smoc (Stingfl) mice were purchased from Shanghai Model Organisms Center, Inc. (Shanghai, China). C57BL/6J-Ifnar1em1(flox)Cya (Ifnar1fl) mice were purchased from Cyagen Biosciences (Guangzhou, China). Stingcko and Ifnar1cko mice were generated by crossing Pf4-Cre mice with…

Continue Reading Apoptosis-resistant megakaryocytes produce large and hyperreactive platelets in response to radiation injury | Military Medical Research

Summary of Genomics and Transcriptomics – DNA sequencing I. Goal II. Methodology A. Sanger DNA

DNA sequencing I. Goal II. Methodology A. Sanger DNA sequencing ● Up to 900 base pairs ● Primer extension with labeled ddNTPs (radioactive or fluorescent) ● Prior knowledge on target needed ● Difficult to detect variation in mixtures ● High accuracy + still in use for genotyping When it is…

Continue Reading Summary of Genomics and Transcriptomics – DNA sequencing I. Goal II. Methodology A. Sanger DNA

Frontiers Publishing Partnerships | Construction of recombinant adenovirus-5 vector to prevent replication-competent adenovirus occurrence

Introduction In recent years, recombinant adenoviral vectors have been used in different fields of biomedical sciences such as in vitro and in vivo gene transfer, vaccine development, and gene therapy (Russell, 2000; Mitani and Kubo, 2002). Multiple features of recombinant adenoviral vectors such as high packaging capacity for transgene insertion,…

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CRISPR/Cas9-mediated nexilin deficiency interferes with cardiac contractile function in zebrafish in vivo

CRISPR/Cas9-induced homozygous knockout of nexn causes progressive cardiac dysfunction without affecting skeletal muscle function in zebrafish Several studies in different animal models and cardiomyopathy patients have shown that loss of NEXN is leading to DCM which is characterized by an impaired contractility of the heart6,10,12. Homozygous loss of NEXN mostly…

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Sequential deregulation of histone marks, chromatin accessibility and gene expression in response to PROTAC-induced degradation of ASH2L

Loss of ASH2L prevents cell proliferation We have studied the molecular and cellular consequences of Ash2l loss in mouse embryo fibroblasts (MEFs) with floxed Ash2l alleles and an inducible Cre-ER recombinase (iMEF-Ash2lfl/fl-Cre-ER). While the knockout of Ash2l was rapid, the downstream effects, including the decrease in promoter-associated H3K4me3, altered gene…

Continue Reading Sequential deregulation of histone marks, chromatin accessibility and gene expression in response to PROTAC-induced degradation of ASH2L

ABL DIAGNOSTICS INTRODUCING CRISPRCHEK – A NEW LINE OF ASSAYS USING THE CRISPR TECHNOLOGY

ABL Diagnostics keeps innovating and developing its Research & Development activities through a new line of PCR detection assays, called CRISPRChek, using the disruptive CRISPR technology. First CRISPRChek prototypes to be focusing on HIV & SARS-CoV-2 detection and quantification. Ambitions to position such innovation as an alternative to current qPCR…

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Validation of Oxford nanopore sequencing for improved New World Leishmania species identification via analysis of 70-kDA heat shock protein | Parasites & Vectors

Akhoundi M, Downing T, Votypka J, Kuhls K, Lukes J, Cannet A, et al. Leishmania infections: molecular targets and diagnosis. Mol Aspects Med. 2017;57:1–29. Article  PubMed  Google Scholar  Akhoundi M, Kuhls K, Cannet A, Votypka J, Marty P, Delaunay P, et al. A historical overview of the classification, evolution, and…

Continue Reading Validation of Oxford nanopore sequencing for improved New World Leishmania species identification via analysis of 70-kDA heat shock protein | Parasites & Vectors

Spotted Knifejaw Sex Differentiation Unraveled in New Study

A new study published in Biological Macromolecules on Dec. 7 has identified the regulatory mechanism of sex differentiation in the important cultured fish, the spotted knifejaw (X1X1X2X2/X1X2Y). Previous studies have highlighted the pivotal role of the Doublesex mab-3 related transcription (DMRT) family in male sex determination and differentiation. However, its…

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qPCR Reagents Market is Anticipated to reach above USD 2.12 billion by 2030, grow at +8 % CAGR from 2023 to 2030

qPCR Reagents Market qPCR Reagents Market is expected to grow at 8 % CAGR from 2023 to 2030. It is expected to reach above USD 2.12 billion by 2030 from USD 1.23 billion in 2023. qPCR reagents are essential components used in the qPCR or RT-PCR process, allowing researchers to…

Continue Reading qPCR Reagents Market is Anticipated to reach above USD 2.12 billion by 2030, grow at +8 % CAGR from 2023 to 2030

Data from the development and evaluation of a CRISPR/Cas12a-based biosensor for the detection of DNA from Pseudogymnoascus destructans using samples collected from various species of bats across the United States, from 2018 to 2023

Reported here are the fluorescence data points recorded from CRISPR/Cas12a biosensor assays to detect the presence or absence of DNA from Pseudogymnoascus destructans (Pd), the causative fungal agent of white-nose syndrome in bats, from artificial controls, dermal swab, and guano samples. Ct values from qPCR experiments are also provided in…

Continue Reading Data from the development and evaluation of a CRISPR/Cas12a-based biosensor for the detection of DNA from Pseudogymnoascus destructans using samples collected from various species of bats across the United States, from 2018 to 2023

Stk3 Mouse shRNA Plasmid (Locus ID 56274) Clinisciences

Product Data Locus ID 56274 Synonyms 0610042I06Rik; mess1; MST; Mst2; Mst3; Ste20 Vector pGFP-C-shLenti E. coli Selection Chloramphenicol (34 ug/ml) Mammalian Cell Selection Puromycin Format Lentiviral plasmids Kit Components Stk3 – Mouse, 4 unique 29mer shRNA constructs in lentiviral GFP vector(Gene ID = 56274). 5µg purified plasmid DNA per construct29-mer…

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Bioinformatics-based analysis of the relationship between disulfidptosis and prognosis and treatment response in pancreatic cancer

Identification of DRGs in PCa Figure 1a showed the flow chart of this study. To explore the role of DRGs in PCa, we analyzed the gene expression profiles of these 15 DRGs in PCa patients. As shown in Fig. 1b, for ACTN4, TLN1, IQGAP1, CD2AP, FLNA, MYH9, MYL6, and ACTB genes, the…

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Mitochondrial DNA copy number in adults with and without Type 1 diabetes

Abstract AIMS: Mitochondrial damage is implicated in diabetes pathogenesis and complications. Mitochondrial DNA copy number (mtDNA-cn) in human Type 1 diabetes (T1D) studies are lacking. We related mtDNA-cn in T1D and non-diabetic adults (CON) with diabetes complications and risk factors. METHODS: Cross-sectional study: 178 T1D, 132 non-diabetic controls. Associations of…

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Beyond the exome: utility of long-read whole genome sequencing in exome-negative autosomal recessive diseases | Genome Medicine

Our cohort comprises 34 families in which a presumably autosomal recessive disease defied molecular diagnosis by clinical exome sequencing (short-read sequencing-based) and reanalysis performed on the index individual for each family (Fig. 1). The index patient in each family was subjected to an average of 10 × depth lrWGS except for Family F8602…

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QIAseq miRNA 96 Index Kit IL UDI-B (96)

Gel-free miRNA Sample to Insight solution for differential expression analysis and novel discovery using next-generation sequencing Features Gel-free miRNA sequencing library prep from as little as 1 ng of total RNA Elimination of adapter dimers and unwanted RNA species resulting in the highest fidelity and most efficient data Integrated Unique…

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Benchmarking DNA isolation methods for marine metagenomics

Scheme of the study The overall pipeline of our study is presented in Fig. 1 and is described in detail in the methods section. We processed three types of samples: fresh water, sea sediment, and digestive system of a marine invertebrate M. gigas (“gut flora”). These samples were treated in triplicates…

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Anitoa rolls out new qPCR modular system

The new system is suitable for use in various applications, including sample/library preparation for DNA sequencing. Credit: Anitoa Systems, LLC/PRNewswire. Biotechnology company Anitoa Systems has launched the Anitoa MAx16, an automation-ready real-time polymerase chain reaction (qPCR) modular system. The new fully integrated four-plex (4 independent fluorescence channels) qPCR module with…

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Linear Model Fitting and Colinearity

Linear Model Fitting and Colinearity 1 @7220be07 Last seen 9 hours ago United States Hello All, I have an RNAseq experiment with paired samples (before and after treatment). For each sample, I also have metadata on the patient such as sex. The only comparison that I care about is the…

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Atg7 senses ATP levels and regulates AKT1-PDCD4 phosphorylation-ubiquitination axis to promote survival during metabolic stress

Atg7 interacts with PDCD4 and negatively regulates PDCD4 protein levels Previous studies have demonstrated the role of Atg7 in maintaining metabolic homeostasis by initiating autophagy and arresting the cell cycle17,18,22. Herein, the function of Atg7 was more comprehensively investigated and it was determined whether Atg7 reduces protein synthesis to save…

Continue Reading Atg7 senses ATP levels and regulates AKT1-PDCD4 phosphorylation-ubiquitination axis to promote survival during metabolic stress

An ncRNA transcriptomics-based approach to design siRNA molecules against SARS-CoV-2 double membrane vesicle formation and accessory genes | BMC Infectious Diseases

When compared to the genomes of other RNA viruses, coronaviruses have been found to possess largest genome sizes. They are capable of establishing reservoirs in both human and zoonotic populations, enabling their transmission and circulation among a range of animal hosts, including bats, pangolins, civets, cats, mice, pigs, whales, dogs,…

Continue Reading An ncRNA transcriptomics-based approach to design siRNA molecules against SARS-CoV-2 double membrane vesicle formation and accessory genes | BMC Infectious Diseases

Biosensors | Free Full-Text | CRISPR/Cas12a-Based Detection Platform for Early and Rapid Diagnosis of Scrub Typhus

1. Introduction Orientia tsutsugamushi (OT) is an obligate intracellular parasite bacteria and the causative agent of scrub typhus (ST), which is associated with acute febrile illness (AFI) [1] and transmitted by mites through an infected chigger bite (in the larval stage). This disease, which was earlier believed to be endemic…

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We can now sample water to find the DNA of every species living there

Figuring out what species live in an ecosystem, and which ones are rare or just good at hiding is an essential way to understand and care for them. Until now, it’s been very labour-intensive. But now we can do it differently. Take a sample from the ocean and match tiny…

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RNASEH1-AS1 induced by H3K27ac stabilizes ANXA2 mRNA to promote the progression of colorectal cancer through recruiting BUD13

Colorectal cancer (CRC) is a malignant tumor with high morbidity and mortality. It is well-accepted that dysregulated lncRNAs are closely related to the development of CRC. In this study, the function and mechanism of RNASEH1-AS1 in CRC were investigated. RT-qPCR and western blot detected the expression of targeted genes in…

Continue Reading RNASEH1-AS1 induced by H3K27ac stabilizes ANXA2 mRNA to promote the progression of colorectal cancer through recruiting BUD13

CRISPRi gene modulation and all-optical electrophysiology in post-differentiated human iPSC-cardiomyocytes

A feasibility CRISPRi study was performed in post-differentiated iPSC-CMs targeting key genes important in cardiac electrophysiology. Comprehensive analysis using all-optical electrophysiology and a pipeline enabling correlative analysis of functional and molecular data in the same samples helped quantify the CRISPRi gene modulation in this in vitro model. Time-dependent control of…

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Advancements in Non-human Forensic DNA Analysis

Alahi MEE, Mukhopadhyay SC (2017) Detection methodologies for pathogen and toxins: a review. Sensors 1885:17 Google Scholar  Aly SM, Sabri DM (2015) Next generation sequencing (NGS): a golden tool in forensic toolkit. Archiwum Medycyny Sądowej i Kryminologii/Archives of Forensic Medicine and Criminology 65(4):260–271 Google Scholar  Amendt J, Richards CS, Campobasso…

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Advanced Emerging Techniques for Forensic DNA Analysis: STRs, SNPs, and mtDNA Analysis

Alshehhi A, Almarzooqi A, Alhammadi K, Werghi N, Tay GK, Alsafar H (2023) Advancement in human face prediction using DNA. Genes (Basel) 14:136. doi.org/10.3390/genes14010136 CrossRef  CAS  PubMed  Google Scholar  Amorim A, Fernandes T, Taveira N (2019) Mitochondrial DNA in human identification: a review. PeerJ 7:e7314. doi.org/10.7717/peerj.7314 CrossRef  PubMed Central  PubMed …

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SNORA56-mediated pseudouridylation of 28 S rRNA inhibits ferroptosis and promotes colorectal cancer proliferation by enhancing GCLC translation

Background: Colorectal cancer (CRC) is one of the most common malignancies and is characterized by reprogrammed metabolism. Ferroptosis, a programmed cell death dependent on iron, has emerged as a promising strategy for CRC treatment. Although small nucleolar RNAs are extensively involved in carcinogenesis, it is unclear if they regulate ferroptosis…

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gene expression – Feasibility of Enrichment Analysis from RT-qPCR results

Cross-posted on biostars: www.biostars.org/p/9581891/ I was wondering if make sense to perform an Enrichment Analysis from results obtained by RT-qPCR. I know you tipically do this with some NGS results, but I have 50 genes done by RT-qPCR I would be looking for pathways or disease association in an standardized…

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Genomic DNA extraction optimization and validation for genome sequencing using the marine gastropod Kellet’s whelk [PeerJ]

Introduction Rapidly advancing next generation sequencing technologies such as whole genome sequencing, genotyping-in-thousands by sequencing (GT-seq), and restriction-site-associated DNA sequencing (RAD-seq), are becoming more available and affordable for non-model organisms (Park & Kim, 2016; Ellegren, 2014; Van Wyngaarden et al., 2017; Bootsma et al., 2020). However, applying these technologies to…

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SkinTech Company Codex Unveils DNA Test Kits With QPCR Sequencing For Skin Conditions

Codex Labs, a Silicon Valley biotech skintech company, has launched the first of two at-home diagnostic kits that it says provide a data-driven approach to skin conditions.  The new tests play a role in the company’s new “SGBNET” platform, which marks its foray into the telehealth space. In 2022, the…

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Feasibility of Enrichment Analysis from RTqPCR results

Forum:Feasibility of Enrichment Analysis from RTqPCR results 0 I was wondering if I can perform an Enrichment Analysis from results obtained by RT-qPCR. I know you tipically do this with some sequenced results, but I have 50 genes done by RT-qPCR Thanks in advance GO RT-qPCR Enrichment-Analysis • 50 views…

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Digital PCR (dPCR) and Quantitative PCR (qPCR) Market Size & Share to Surpass USD 7.5 billion by 2031

Transparency Market Research Growing emphasis on robust data analysis tools and software enhances the utility of dPCR and qPCR platforms, enabling efficient interpretation and utilization of complex molecular data. Wilmington, Delaware, United States, Dec. 04, 2023 (GLOBE NEWSWIRE) — Transparency Market Research Inc. – The global digital PCR (dPCR) and…

Continue Reading Digital PCR (dPCR) and Quantitative PCR (qPCR) Market Size & Share to Surpass USD 7.5 billion by 2031

Codex Labs launches SGBNET platform for genetic counselling

Codex Lab’s two at-home DECODE diagnostic kits use qPCR sequencing. Credit: Codex Labs/ GLOBE NEWSWIRE. Biotech skintech company Codex Labs has introduced the SGBNET platform for genetic counselling and Decode DNA Tests for skin conditions and vitamin deficiencies. The platform comprises the AI analytic DermSCORE, which monitors comedones, acne lesions,…

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Characteristics of BMKS patient-, mother- and unrelated control-derived iPSCs.

For the analyses, data from two patient iPSC lines, two parent iPSC lines and two unrelated control iPSC lines were pooled. A) Relative TXNL4A mRNA expression levels for patient iPSCs compared to mother iPSCs and unrelated control iPSCs, determined using qPCR of cDNA from each cell line. Graphs were obtained…

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Acd Rat shRNA Plasmid (Locus ID 307798) Clinisciences

Product Data Locus ID 307798 Synonyms MGC116400 Vector pRS E. coli Selection Ampicillin Mammalian Cell Selection Puromycin Format Retroviral plasmids Kit Components Acd – Rat, 4 unique 29mer shRNA constructs in retroviral untagged vector(Gene ID = 307798). 5µg purified plasmid DNA per construct29-mer scrambled shRNA cassette in pRS Vector, TR30012,…

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new FREM platform delivers 98% accuracy for rapid screening and genotyping

In a recent study published in eBioMedicine, researchers developed the Flexible, Robust, Equipment-free Microfluidic (FREM) platform for malaria screening and Plasmodium species genotyping. Study: A versatile microfluidic platform for malaria infection screening and Plasmodium species genotyping. Image Credit: nechaevkon/Shutterstock.com Background Malaria, a worldwide health concern caused by Plasmodium species, needs precise detection and genotyping…

Continue Reading new FREM platform delivers 98% accuracy for rapid screening and genotyping

Benchmarking of bioinformatics tools for NGS-based microRNA profiling with RT-qPCR method

MicroRNAs are vital gene expression regulators, extensively studied worldwide. The large-scale characterization of miRNAomes is possible using next-generation sequencing (NGS). This technology offers great opportunities, but these cannot be fully exploited without proper and comprehensive bioinformatics analysis. This may be achieved by the use of reliable dedicated software; however, different…

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Extraction-free LAMP assays for generic detection of Old World Orthopoxviruses and specific detection of Mpox virus

Phylogenomic analysis of Orthopoxvirus genomes A phylogenomic analysis of 200 Orthopoxvirus genomes, identified 10 distinct clades within this genus, which are here named as phylogroups 1 to 10 and are denoted as OPV-PG-01 to OPV-PG-10 (Fig. 1) based on their nesting patterns (Supplementary Fig. S1), where the 100 MPV isolates included…

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A Reliable Method for Quantifying Plasma Cell-Free DNA Using an Internal Standard Strategy: Evaluation in a Cohort of Non-Pregnant and Pregnant Women

Martignano F. Cell-free DNA: an overview of sample types and isolation procedures. In: Casadio V, Salvi S, editors. Cell-free DNA as diagnostic markers. Methods in molecular biology, Vol. 1909. New York, NY: Humana Press; 2019. p. 13–27. doi.org/10.1007/978-1-4939-8973-7_2. Volckmar AL, Sültmann H, Riediger A, Fioretos T, Schirmacher P, Endris V,…

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The only way is Esox

Can you tell me a bit about your background? I was born in London, UK to an Irish mother and Canadian father. School holidays were spent in each country whereby I established my passion for fish, fishing and the aquatic world. Every day would be spent by the water: watching…

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Greenphire, Florence Healthcare Team Up; Illumina Partnerships; Oxford Nanopore Develops New Data Technology

November 29, 2023 | Greenphire and Florence Healthcare announce a technology partnership; Illumina and Veracyte join together in a multi-year agreement; Oxford Nanopore Technologies collaborates with Fabric Genomics and Saphetor to develop data technology for research; more.  Greenphire and Florence Healthcare announced a technology partnership that integrates two of the…

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Release Testing Of AAV Gene Therapies For Clinical Trials

By Mark Haydock, biologics CMC consultant, Agile Biologics Consulting LLC Adeno-associated virus (AAV) gene therapies that are designed to deliver a therapeutic transgene to patients are complex products that can be challenging to manufacture. Because of their complexity, a variety of analytical methods are required to ensure that these viral…

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OAS2 Human shRNA Plasmid Kit (Locus ID 4939) Clinisciences

Product Data Locus ID 4939 Vector pRS E. coli Selection Ampicillin Mammalian Cell Selection Puromycin Format Retroviral plasmids Kit Components OAS2 – Human, 4 unique 29mer shRNA constructs in retroviral untagged vector(Gene ID = 4939). 5µg purified plasmid DNA per construct29-mer scrambled shRNA cassette in pRS Vector, TR30012, included for…

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Bioinformatics Trainer Part Time Job Opening at Biotecnika

Bioinformatics Trainer Part Time Job Opening at Biotecnika Bangalore Biotecnika Info Labs Pvt Ltd is a leading Bio-IT Company with a diversified portfolio in Information technology and biotechnology. We seek a highly motivated and experienced individual to join our team as a Part-Time Bioinformatics Trainer & Researcher. The successful candidate…

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Optimized RT-qPCR and a novel normalization method for validating circulating miRNA biomarkers in ageing-related diseases

Reagents miRNeasy Serum/Plasma Advanced Kit (Qiagen, Hilden, Germany, # 217204); TaqMan® Advanced miRNA cDNA Synthesis Kit (Applied Biosystems, Bedford, MA, USA, #A28007); TaqMan® Fast Advanced Master Mix (Applied Biosystems, Bedford, MA, USA, # 4444556); TaqMan® Advanced miRNA Assays Single-tube assays (Applied Biosystems, Bedford, MA, USA, # A25576: 478293_mir, Spike-In cel-miR-39-3p;…

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NFIB Human shRNA Plasmid Kit (Locus ID 4781) Clinisciences

Product Data Locus ID 4781 Synonyms CTF; HMGIC/NFIB; MACID; NF-I/B; NF1-B; NFI-B; NFI-RED; NFIB2; NFIB3 Vector pGFP-V-RS E. coli Selection Kanamycin Mammalian Cell Selection Puromycin Format Retroviral plasmids Kit Components NFIB – Human, 4 unique 29mer shRNA constructs in retroviral GFP vector(Gene ID = 4781). 5µg purified plasmid DNA per…

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Airborne SARS-CoV-2 is more frequently detected in environments related to children and elderly but likely non-infectious, Norway, 2022 | Virology Journal

With all COVID-19 restrictions being lifted in Norway, and no obligation for mask use, not even in healthcare facilities, the present study aimed to assess the presence of SARS-CoV-2 in air samples from various indoor and outdoor spaces, including both healthcare and non-healthcare related facilities. We found that, out of…

Continue Reading Airborne SARS-CoV-2 is more frequently detected in environments related to children and elderly but likely non-infectious, Norway, 2022 | Virology Journal

Biophysical properties of NaV1.5 channels from atrial-like and ventricular-like cardiomyocytes derived from human induced pluripotent stem cells

hiPSC cultures and cardiomyocyte differentiation The hiPSC lines CBRCULi001-A54 and CBRCULi008-A55 were generated from a 44-year-old male and 75-year-old female control lymphoblastoids, respectively, and they were reprogramed at the LOEX core facility (Quebec City, QC, Canada). All the work with hiPSCs were approved by CIUSSS de la Capitale-Nationale ethics committee (Project…

Continue Reading Biophysical properties of NaV1.5 channels from atrial-like and ventricular-like cardiomyocytes derived from human induced pluripotent stem cells

Genomic DNA-based measurable residual disease monitoring in pediatric acute myeloid leukemia: unselected consecutive cohort study

Genetic characterization For risk stratification and identification of genetic aberrations suitable as MRD targets, diagnostic material from 133 children with primary AML was examined (see “Methods” and Supplementary Table 3). The presence of selected fusion genes and mutations was prospectively investigated using (q)RT-PCR and sequencing. A primary genetic aberration was found…

Continue Reading Genomic DNA-based measurable residual disease monitoring in pediatric acute myeloid leukemia: unselected consecutive cohort study

GYPB Human shRNA Plasmid Kit (Locus ID 2994) Clinisciences

Product Data Locus ID 2994 Synonyms CD235b; GPB; GYP; GYPA; MNS; PAS-3; SS Vector pGFP-C-shLenti E. coli Selection Chloramphenicol (34 ug/ml) Mammalian Cell Selection Puromycin Format Lentiviral plasmids Kit Components GYPB – Human, 4 unique 29mer shRNA constructs in lentiviral GFP vector(Gene ID = 2994). 5µg purified plasmid DNA per…

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Detection of monkeypox virus using helicase dependent amplification and recombinase polymerase amplification combined with lateral flow test | Virology Journal

In recent years, MPX has evolved into a global epidemic and a “public health emergency of international concern” [14]. Early in its discovery, MPX was frequently misdiagnosed as smallpox due to the similarity of its symptoms to those of smallpox. Since smallpox has been eradicated, the routine diagnosis of MPX…

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synergistic strategies combining low-temperature culture and mTORC1 signaling engineering

Introduction: The growing demand for recombinant proteins in medicine has prompted biopharmaceutical companies to seek ways to maximize the manufacturing process. Despite its known negative impact on cell growth, temperature shift (TS) has emerged as a cost-effective strategy to enhance protein quantity and quality in Chinese Hamster Ovary cells (CHO)….

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synergistic strategies combining low-temperature culture and mTORC1 signaling engineering.docx

Introduction: The growing demand for recombinant proteins in medicine has prompted biopharmaceutical companies to seek ways to maximize the manufacturing process. Despite its known negative impact on cell growth, temperature shift (TS) has emerged as a cost-effective strategy to enhance protein quantity and quality in Chinese Hamster Ovary cells (CHO)….

Continue Reading synergistic strategies combining low-temperature culture and mTORC1 signaling engineering.docx

AK2 Human shRNA Plasmid Kit (Locus ID 204) Clinisciences

Product Data Locus ID 204 Synonyms ADK2 Vector pGFP-C-shLenti E. coli Selection Chloramphenicol (34 ug/ml) Mammalian Cell Selection Puromycin Format Lentiviral plasmids Kit Components AK2 – Human, 4 unique 29mer shRNA constructs in lentiviral GFP vector(Gene ID = 204). 5µg purified plasmid DNA per construct29-mer scrambled shRNA cassette in pGFP-C-shLenti…

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Cellular senescence triggers intracellular acidification and lysosomal pH alkalinized via ATP6AP2 attenuation in breast cancer cells

Doxo and Abe promote cellular senescence accompanied by an altered profile of senescence-related genes in breast cancer cells Doxo and Abe were used to treat breast cancer cells (human triple-negative breast cancer cell line MDA-MB-231 and human luminal A subtype breast cancer cell line MCF-7) for 24 h, without a robust…

Continue Reading Cellular senescence triggers intracellular acidification and lysosomal pH alkalinized via ATP6AP2 attenuation in breast cancer cells

Research Fellow, School of Medicine job with QUEENS UNIVERSITY BELFAST

Job reference: 23/111420 Date posted: 20/11/2023 Application closing date: 11/12/2023 Salary: £37,841 per annum Job category/type: Research The School of Medicine, Dentistry & Biomedical Sciences (MDBS) at Queen’s University Belfast, is currently seeking to appoint an exceptional candidate to the post of Research Fellow to work on a Leukaemia and Lymphoma NI (LLNI) funded project focused on…

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Seeking Advice on Validating RNA-Seq Data Before Differential Analysis

Seeking Advice on Validating RNA-Seq Data Before Differential Analysis 0 Hello, I recently received the RNA-Seq analysis results for a set of samples from a sequencing company. My plan involves the following steps: Perform differential gene expression analysis to obtain a list of differentially expressed genes. Utilize Gene Ontology analysis…

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SIGIRR Human shRNA Lentiviral Particle (Locus ID 59307)

Product Data Locus ID 59307 Synonyms IL-1R8; TIR8 Vector pGFP-C-shLenti Format Lentiviral particles RefSeq NM_001135053, NM_001135054, NM_021805, NM_021805.1, NM_021805.2, NM_001135053.1, NM_001135054.1, BC003591, BC003591.1, BC025953, BC106007, NM_001135054.2, NM_001135053.2 UniProt ID Q6IA17 Summary Acts as a negative regulator of the Toll-like and IL-1R receptor signaling pathways. Attenuates the recruitment of receptor-proximal signaling…

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IL6 Human shRNA Plasmid Kit (Locus ID 3569) Clinisciences

Product Data Locus ID 3569 Synonyms BSF-2; BSF2; CDF; HGF; HSF; IFN-beta-2; IFNB2; IL-6 Vector pRS E. coli Selection Ampicillin Mammalian Cell Selection Puromycin Format Retroviral plasmids Kit Components IL6 – Human, 4 unique 29mer shRNA constructs in retroviral untagged vector(Gene ID = 3569). 5µg purified plasmid DNA per construct29-mer…

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Volition Presents at the 5th Annual Congress of the International Liquid Biopsy Society

HENDERSON, Nev, Nov. 17, 2023 /PRNewswire/ — VolitionRx Limited (NYSE AMERICAN: VNRX) (“Volition”), a multi-national epigenetics company, is presenting at the 5th Annual Congress of Liquid Biopsy being held in Madrid, Spain. Lea Payen-Gay, Professor in Toxicology and Biochemistry, University of Lyon I Hospices Civils de Lyon, France and Dr. Jake…

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Transgenerational epigenetic effects imposed by neonicotinoid thiacloprid exposure

This study is aimed at revealing the transgenerational effects of thia. We chose the developmental window from embryonic days 6.5 to E15.5 because of its importance in germ cell program establishment. The mice breeding was described in the Materials and Methods section “Mouse treatment and dissection.” The design of the…

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Exosome-delivered circRNA circSYT15 contributes to cisplatin resistance in cervical cancer cells through the miR-503-5p/RSF1 axis

The development of chemotherapy resistance is a major obstacle for cervical cancer (CC) patients. Exosome-mediated transfer of circular RNAs (circRNAs) was found to have relevance to the CC. This study is designed to explore the role and mechanism of exosomal circRNA synaptotagmin 15 (circSYT15) on cisplatin (DDP) resistance in CC….

Continue Reading Exosome-delivered circRNA circSYT15 contributes to cisplatin resistance in cervical cancer cells through the miR-503-5p/RSF1 axis

Rapid Adeno-Associated Virus Genome Quantification with Amplification-Free CRISPR-Cas12a

Abstract Efficient manufacturing of recombinant Adeno-Associated Viral (rAAV) vectors to meet rising clinical demand remains a major hurdle. One of the most significant challenges is the generation of large amounts of empty capsids without the therapeutic genome. There is no standardized analytical method to accurately quantify the viral genes, and…

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DRIP-qPCR validation – Mendeley Data

Description 1. HEK293 cells were obtained from the National Collection of Authenticated Cell Culture of China (accession number: SCSP-5014) and cultured in DMEM supplemented with 10% FBS and penicillin/streptomycin (100U/ml) at 37°C with 5%CO2. Expression vector carrying NOTCH2NLC exon1 with different numbers of GGC repeats were prepared and transfected into…

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CD96 Human shRNA Lentiviral Particle (Locus ID 10225)

Product Data Locus ID 10225 Synonyms TACTILE Vector pGFP-C-shLenti Format Lentiviral particles RefSeq NM_001318889, NM_005816, NM_198196, NR_134917, NM_198196.1, NM_198196.2, NM_005816.1, NM_005816.2, NM_005816.3, NM_005816.4, BC020749, BC027914, BM561433, NM_005816.5 UniProt ID P40200 Summary The protein encoded by this gene belongs to the immunoglobulin superfamily. It is a type I membrane protein. The…

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RhoA suppresses pseudorabies virus replication in vitro | Virology Journal

Materials The Cell Counting Kit-8 (CCK-8) was ordered from Yeasen BioTechnologies co, Ltd. (Shanghai, China). Anti-GAPDH was purchased from Proteintech Group, Inc. (Chicago, USA). Anti RhoA was purchased from Novus Biologicals (Colorado, USA). Antiserum against PRV glycoprotein gB was generated by immunization of mice with purified recombinant gB. Goat anti-Mouse…

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Chitin degradation by Synechococcus WH7803

Candidate chitinase genes have been previously identified with bioinformatic tools2. A putative chitinase gene in the Synechococcus WH7803 genome is WH7803_2068, which we refer to as chiA henceforth. ChiA contains a Beta-glycosidase of family GH18 listed as a possible chitinase and two N-terminal carbohydrate-binding domain of the CBM28 family (Fig….

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Saponin treatment for eukaryotic DNA depletion alters the microbial DNA profiles by reducing the abundance of Gram-negative bacteria in metagenomics analyses

INTRODUCTION Microbiome research, especially the detection of microorganisms by molecular techniques, has become a fundamental tool for investigating host-associated bacteria, such as those harbored by veterinary or human clinical samples[1,2]. Next-generation sequencing (NGS) approaches now enable the identification of slow-growing, non-cultivable, or non-viable bacteria contained in clinical specimens without relying…

Continue Reading Saponin treatment for eukaryotic DNA depletion alters the microbial DNA profiles by reducing the abundance of Gram-negative bacteria in metagenomics analyses

Detection of Clostridium perfringens Using Novel Methods Based on Recombinase-Aided Amplification Assay-Assisted CRISPR/Cas12a System

Clostridium perfringens is a highly versatile pathogen of humans and animals. Rapid and sensitive detection methods for C. perfringens are urgently needed for the timely implementation of control. In this study, to provide novel promising methods for the detection of C. perfringens, two rapid, sensitive, and instrument-free C. perfringens detection…

Continue Reading Detection of Clostridium perfringens Using Novel Methods Based on Recombinase-Aided Amplification Assay-Assisted CRISPR/Cas12a System

It sounds like science fiction. But we can now sample water to find the DNA of every species living there

Figuring out what species live in an ecosystem, and which ones are rare or just good at hiding is an essential way to understand and care for them. Until now, it’s been very labour intensive. But now we can do it differently. Take a sample from the ocean and match…

Continue Reading It sounds like science fiction. But we can now sample water to find the DNA of every species living there

AMH Human shRNA Plasmid Kit (Locus ID 268) Clinisciences

Product Data Locus ID 268 Synonyms MIF; MIS Vector pRS E. coli Selection Ampicillin Mammalian Cell Selection Puromycin Format Retroviral plasmids Kit Components AMH – Human, 4 unique 29mer shRNA constructs in retroviral untagged vector(Gene ID = 268). 5µg purified plasmid DNA per construct29-mer scrambled shRNA cassette in pRS Vector,…

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mRNA Extraction and Purification Market to Record an Exponential CAGR by 2030

InsightAce Analytic Pvt. Ltd. has announced the publication of a market research report titled “Global mRNA Extraction and Purification Market– By Product (Kits/Reagents, Instruments) End-user (Academics and Research Institutes, Pharmaceutical & Biotechnology Companies, Contract Research Organizations, Other End Users) Trends, Industry Competition Analysis, Revenue and Forecast To 2030.” According to…

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ABCB1 and immune genes in breast cancer

Introduction Chemoresistance is a major challenge for breast cancer treatment.1 The mechanisms of chemoresistance are complex because of crosstalk between receptor tyrosine kinases and downstream pathways, deregulation of cell-cycle and apoptosis regulators, and modulation of tumor-infiltrating immune cells.2 The ATP-binding cassette (ABC) superfamily is one of the largest families of…

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IGF1 Receptor (IGF1R) Human shRNA Plasmid Kit (Locus ID)

Product Data Locus ID 3480 Synonyms CD221; IGFIR; IGFR; JTK13 Vector pRS E. coli Selection Ampicillin Mammalian Cell Selection Puromycin Format Retroviral plasmids Kit Components IGF1R – Human, 4 unique 29mer shRNA constructs in retroviral untagged vector(Gene ID = 3480). 5µg purified plasmid DNA per construct29-mer scrambled shRNA cassette in…

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Advillin (AVIL) Human shRNA Plasmid Kit (Locus ID 10677)

Product Data Locus ID 10677 Synonyms ADVIL; DOC6; NPHS21; p92 Vector pGFP-C-shLenti E. coli Selection Chloramphenicol (34 ug/ml) Mammalian Cell Selection Puromycin Format Lentiviral plasmids Kit Components AVIL – Human, 4 unique 29mer shRNA constructs in lentiviral GFP vector(Gene ID = 10677). 5µg purified plasmid DNA per construct29-mer scrambled shRNA…

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A Cre-dependent massively parallel reporter assay allows for cell-type specific assessment of the functional effects of non-coding elements in vivo

Animal models All procedures involving animals were approved by the Institutional Animal Care and Use Committee (IACUC) at Washington University in St. Louis, MO. Veterinary care and housing was provided by the veterinarians and veterinary technicians of Washington University School of Medicine under Dougherty lab’s approved IACUC protocol. All protocols…

Continue Reading A Cre-dependent massively parallel reporter assay allows for cell-type specific assessment of the functional effects of non-coding elements in vivo

Establishment of RT-RPA-Cas12a assay for rapid and sensitive detection of human rhinovirus B | BMC Microbiology

Clinical samples Thirty nasopharyngeal aspirates were collected from individuals with symptoms of respiratory tract infections, and tested positive for HRV-A (5 clinical samples), HRV-B (20 clinical samples), or HRV-C-positive (5 clinical samples) based on the method, as previously described [27]. Ten other specimens were tested negative for HRV-B, including human…

Continue Reading Establishment of RT-RPA-Cas12a assay for rapid and sensitive detection of human rhinovirus B | BMC Microbiology

Recovery of microbial DNA by agar-containing solution from extremely low-biomass specimens including skin

Ethical considerations This study complies with relevant institutional, national, and international guidelines and legislation. The Ethics Committee at the RIKEN Center for Integrative Medical Sciences (H30-4) approved this study, and written informed consent was obtained from all volunteers who provided specimens. Sampling solutions The AgST solution was prepared as follows:…

Continue Reading Recovery of microbial DNA by agar-containing solution from extremely low-biomass specimens including skin

Billions Of Copies Of Residual DNA In A Single Dose Of COVID-19 mRNA Vaccine: Preprint

A new preprint study up for peer review finds billions of residual DNA fragments in the COVID-19 mRNA vaccine vials. The lead author of the study, molecular virologist David Speicher, who has a doctorate in virology, told The Epoch Times that their study is “the largest study” on residual DNA…

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Are Residual DNA In mRNA Vaccines Dangerous?!

Are residual DNA impurities in mRNA vaccines dangerous, and can they integrate into our DNA?! Take a look at the viral claims, and find out what the facts really are!   Claim : Residual DNA In mRNA Vaccines Are Dangerous! Anti-vaccine activists are sharing and/or promoting an article by The…

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CHRNA2 Human shRNA Plasmid Kit (Locus ID 1135) Quimigen

Product Data Locus ID 1135 Vector pRS E. coli Selection Ampicillin Mammalian Cell Selection Puromycin Format Retroviral plasmids Kit Components CHRNA2 – Human, 4 unique 29mer shRNA constructs in retroviral untagged vector(Gene ID = 1135). 5µg purified plasmid DNA per construct29-mer scrambled shRNA cassette in pRS Vector, TR30012, included for…

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ACADVL Protein Vector (Human) (pPM-C-HA)

Cat. No. 11144021 Print Name ACADVL Protein Vector (Human) (pPM-C-HA) Unit 500 ng Gene Name ACADVL Gene Full Name acyl-CoA dehydrogenase, very long chain Alias VLCAD, LCACD, ACAD6 Accession Number NM_000018 Species Human Vector Map pPM-C-HA (click blue link to view) System Non-Viral Vector Insert Size 1968 Vector Size 4765…

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Latent human herpesvirus 6 is reactivated in CAR T cells

Spanjaart, A. M., van der Valk, F. M., van Rooijen, G., Brouwer, M. C. & Kersten, M. J. Confused about confusion. N. Engl. J. Med. 386, 80–87 (2022). Article  PubMed  Google Scholar  Haradhvala, N. J. et al. Distinct cellular dynamics associated with response to CAR-T therapy for refractory B-cell lymphoma….

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Nascent ribosomal RNA act as surfactant that suppresses growth of fibrillar centers in nucleolus

Transcription and RNA processing The occupancy \({n}_{{{{{{\rm{ps}}}}}}}\) of the TSS of the active rDNA by Pol I follows the kinetic equation $$\frac{d}{{dt}}{n}_{{{{{{\rm{ps}}}}}}}={k}_{{{{{{\rm{on}}}}}}}\rho \left(1-{n}_{{{{{{\rm{ps}}}}}}}\right)-{k}_{{{{{{\rm{off}}}}}}}{n}_{{{{{{\rm{ps}}}}}}}-{k}_{{{{{{\rm{e}}}}}}}{n}_{{{{{{\rm{ps}}}}}}}.$$ (5) Equation (5) suggests that the occupancy \({n}_{{{{{{\rm{ps}}}}}}}\) changes due to the binding of Pol I from the FC (the first term), the unbinding of Pol I…

Continue Reading Nascent ribosomal RNA act as surfactant that suppresses growth of fibrillar centers in nucleolus

QIAGEN (QGEN) Launches Workflow to Boost Microbiome Research

QIAGEN N.V. QGEN recently announced the launch of the Microbiome WGS (whole-genome sequencing) SeqSets — a comprehensive Sample to Insight workflow designed to provide an easy-to-use solution that maximizes efficiency and reproducibility in microbiome research. The SeqSets are enabled for diverse microbiome research applications, including studies of gut health, soil…

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Expression profiles of circRNAs and biomarkers for COPD

Introduction Chronic obstructive pulmonary disease (COPD) is a chronic inflammatory lung disease featured by airflow obstruction with high prevalence, morbidity, and mortality. It is reported that COPD is the third leading cause of death globally at present, and the incidence of COPD in adults over 40 years is more than…

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Enduring Basics and Evolving Enzyme Kits

By MaryAnn Labant Next-generation sequencing (NGS) is increasingly employed to dive deeper into complex biological mechanisms in a myriad of disciplines. But as with most methodologies, the quality of the input material determines the quality of the resultant data. High-quality sample preparation is the foundation of NGS, and the choices…

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Rapid in situ RNA imaging based on Cas12a thrusting strand displacement reaction | Nucleic Acids Research

Abstract RNA In situ imaging through DNA self-assembly is advantaged in illustrating its structures and functions with high-resolution, while the limited reaction efficiency and time-consuming operation hinder its clinical application. Here, we first proposed a new strand displacement reaction (SDR) model (Cas12a thrusting SDR, CtSDR), in which Cas12a could overcome…

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QIAGEN (QGEN) Launches Workflow to Boost Microbiome Research – November 7, 2023

QIAGEN N.V. (QGEN Quick QuoteQGEN – Free Report) recently announced the launch of the Microbiome WGS (whole-genome sequencing) SeqSets — a comprehensive Sample to Insight workflow designed to provide an easy-to-use solution that maximizes efficiency and reproducibility in microbiome research. The SeqSets are enabled for diverse microbiome research applications, including…

Continue Reading QIAGEN (QGEN) Launches Workflow to Boost Microbiome Research – November 7, 2023