Tag: DNA

Scipio Bioscience Bets on Hydrogel Tech to Differentiate New Single-Cell RNA-seq Kit

NEW YORK – Paris-based Scipio Bioscience this week announced the European launch of its Asteria hydrogel-based single-cell RNA-seq kit. With less reliance on equipment and reagents, the RNA-seq library preparation kit provides researchers with a flexible benchtop protocol for labeling, isolating, and lysing cells, and recovering labeled mRNA. The Asteria kit comes…

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Assistant Professor of bioinformatics and ancient metagenomics – University of Copenhagen – job portal

Job Portal The GLOBE Institute at the Faculty of Health and Medical Sciences, University of Copenhagen seeks to appoint a temporary assistant professor of bioinformatics and ancient metagenomics to commence 1 May 2022 or soon as possible thereafter. Information on the department can be found at: ?url=https%3A%2F%2Fglobe.ku.dk&module=jobs&id=2223594″ target=”_blank” rel=”nofollow”>globe.ku.dk Job…

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Confident chemistry | Scientific Computing World

OpenEye Scientific develops and offers large-scale molecular modelling applications and toolkits, primarily aimed at drug discovery and design. ‘Although our tools are used by a wider industrial sector, from large pharma and small biotechs, through to agrochemicals and materials scientists,’  commented Ashutosh Jogalekar, associate director – applications science at  OpenEye Scientific. OpenEye…

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New method and model address blindspot toward

New method and model address blindspot towards uncommon species in mixed samples For higher accuracy and more effective microbial diagnostics, researchers at the Earlham Institute have evaluated a new approach to analyse metagenomic samples that may contain low numbers of certain species – helping to prevent crucial genomic information from…

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Mitochondrial DNA variation across 56,434 individuals in gnomAD

Genomic databases of allele frequency are extremely helpful for evaluating clinical variants of unknown significance; however, until now, databases such as the Genome Aggregation Database (gnomAD) have focused on nuclear DNA and have ignored the mitochondrial genome (mtDNA). Here we present a pipeline to call mtDNA variants that addresses three…

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Comparison of circulating DNA in malignant neoplasia from diverse locations: Investigating a diagnostic role

Context: Circulating free DNA (cfDNA) analysis has emerged as novel noninvasive diagnostic biomarker in several solid tumors. Raised levels have been reported in several malignancies and may correlate with clinicopathological and treatment response. The current study was designed to assess the diagnostics of cfDNA in different tumor types of malignancies…

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Petabase-scale sequence alignment catalyses viral discovery

Serratus alignment architecture Serratus (v0.3.0) (github.com/ababaian/serratus) is an open-source cloud-infrastructure designed for ultra-high-throughput sequence alignment against a query sequence or pangenome (Extended Data Fig. 1). Serratus compute costs are dependent on search parameters (expanded discussion available: github.com/ababaian/serratus/wiki/pangenome_design). The nucleotide vertebrate viral pangenome search (bowtie2, database size: 79.8 MB) reached processing rates…

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DNA Labs International Launches the Newest Technology for Forensic Genetic Genealogy

MiSeq FGx platform by Verogen DEERFIELD BEACH, Fla. (PRWEB) January 26, 2022 DNA Labs International, which specializes in forensic DNA analysis including forensic genetic genealogy (FGG) for law enforcement agencies, government forensic labs, and attorneys, is announcing the release of their newest technology, Single Nucleotide Polymorphism (SNP) testing with…

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Rise in Incidence of Genetic Diseases & Immediate Measures

Genotyping is a specific technology used for identifying the genetic variations in an individual’s genomic sequence or allelic genes by comparing them to the reference sequence. Genotyping generally helps to explore the genetic variants such as structural changes in the DNA and single nucleotide polymorphism (SNPs). Genotyping assay verifies the…

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Data Scientist – Molecular Biology job with SRG

Data Scientist London (hybrid, some remote working is possible) Permanent Up to £40k per annum I’m partnering with an exciting and revolutionary MedTech organisation based in London who are hiring for a Data Scientist to join their assay development team. The organisation has developed unique wearable, personalised technology to inform…

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Novel diagnostic biomarkers for keloid based on GEO database

Introduction Keloid is excessive fibrosis of the skin that extends beyond the area of injury and does not regress.1 Keloid can occur in the joints and mouth after several years of severe injury, including burns, chemical injury, wound, and surgical incision.2 Keloids on the joints affect the quality of life,…

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Droplet Genomics Debuts New Microfluidic Screening Platform, Touting Throughput, Flexibility

NEW YORK – Droplet Genomics, a European technology company headquartered in Vilnius, Lithuania, is rolling out a new droplet microfluidic platform for high-throughput screening for a variety of research applications. CEO Juozas Nainys said the firm delivered the first of the instruments to customers at the end of 2021 after having…

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Genomics Beyond Health Care: Future Uses and Considerations of Genome Science

A major new report, Genomics Beyond Health, released today by the Government Office for Science, explores how genomics could play a role in our lives in the future, from sports to education and the fight against crime. Until now, genomics has been used primarily in healthcare and medical research where…

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Novel gene rearrangement in the mitochondrial genome of Anastatus fulloi (Hymenoptera Chalcidoidea) and phylogenetic implications for Chalcidoidea

1. Osellame, L. D., Blacker, T. S. & Duchen, M. R. Cellular and molecular mechanisms of mitochondrial function. Best Pract. Res. Clin. Endocrinol. Metab. 26, 711–723 (2012). CAS  PubMed  PubMed Central  Google Scholar  2. Bernt, M., Braband, A., Schierwater, B. & Stadler, P. F. Genetic aspects of mitochondrial genome evolution….

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Comprehensive summary of mitochondrial DNA alterations in the postmortem human brain: A systematic review

Summary Background Mitochondrial DNA (mtDNA) encodes 37 genes necessary for synthesizing 13 essential subunits of the oxidative phosphorylation system. mtDNA alterations are known to cause mitochondrial disease (MitD), a clinically heterogeneous group of disorders that often present with neuropsychiatric symptoms. Understanding the nature and frequency of mtDNA alterations in health…

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Seven technologies to watch in 2022

The Telomere-to-Telomere Consortium is sequencing whole chromosomes.Credit: Adrian T. Sumner/SPL From gene editing to protein-structure determination to quantum computing, here are seven technologies that are likely to have an impact on science in the year ahead. Fully finished genomes Roughly one-tenth of the human genome remained uncharted when genomics researchers…

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The Fabrication and Operation of a Continuous Flow, Micro-Electroporation System with Permeabilization Detection

Current therapeutic innovations, such as CAR-T cell therapy, are heavily reliant on viral-mediated gene delivery. Although efficient, this technique is accompanied by high manufacturing costs, which has brought about an interest in using alternative methods for gene delivery. Electroporation is an electro-physical, non-viral approach for the intracellular delivery of genes…

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Newly discovered protein essential for CRISPR/Cas3 genome editing

24 January 2022 A hidden component of the CRISPR/Cas3 genome editing system, which is essential for it to work, has been discovered by scientists. The CRISPR/Cas3 family of genome editing systems is similar to other CRISPR families but can uniquely make larger and more accurate changes to DNA (see BioNews…

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Executive Search Firm – Recruitment Agenciespinpoint one

Our assignments are continuously exciting and relevant in this consistently challenging economy. our story A story that goes back to the 1st of May 1999 – “International Workers’ Day”as the world was nervous about the possible chaos of Y2K, we instead were confident about our business being an entrepreneurial business…

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Imaging Mitochondrial Ca2+ Uptake in Astrocytes and Neurons using Genetically Encoded Ca2+ Indicators (GECIs)

This proctocol aims to provide a method for in vitro and in vivo mitochondrial Ca2+ imaging in astrocytes and neurons. Demonstrating the procedure will be graduate student Zhe Zhang, research specialist Nannan Zhang, professors Illker Ozden and Shinghua Ding. The overall goal of this procedure is to develop cell type…

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Xenotransplantation: Argentina is about to produce genetically modified animals for human transplants

While the international medical community celebrates the first successful xenotransplantation, in Argentina two research teams from public universities are preparing to produce genetically modified animals so that their organs are suitable for human transplants and the first pigs of this type would be obtained at the end of this year…

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Donor-derived cell-free DNA as a composite marker of acute lung allograft dysfunction in clinical care

This article was originally published here J Heart Lung Transplant. 2021 Dec 26:S1053-2498(21)02630-9. doi: 10.1016/j.healun.2021.12.009. Online ahead of print. ABSTRACT BACKGROUND: As a marker of underlying lung allograft injury, donor-derived cell-free DNA (dd-cfDNA) may be used to identify episodes of acute allograft injury in lung transplant recipients. We investigated the…

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Loncastuximab tesirine: an effective therapy for relapsed or refractory diffuse large B-cell lymphoma

Background: Diffuse large B-cell lymphoma (DLBCL) is the most common type of Non-Hodgkin’s lymphoma in the United States, with approximately 40% of first-line DLBCL chemoimmunotherapy attempts failing. The FDA approved a new type of antibody-drug conjugate (ADC), Zynlonta (loncastuximab tesirine), once called ADCT-402, on April 23, 2021, for relapsed or…

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An eQTL variant of ALDH1A2 is associated with Kashin-Beck disease in Chinese population

Introduction: The aims of the study were to investigate the relationship between aldehyde dehydrogenase 1 family member A2 (ALDH1A2) and Kashin-Beck disease (KBD), explore the effects of the rs3204689 polymorphism and methylation status on the expression levels of ALDH1A2, and further clarify the pathogenesis of KBD. Materials and methods: The…

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Their DNA Hides a Warning, but They Don’t Want to Know What It Says

“I was like, wait a minute. Where is this information going? How will it be utilized?” she later asked. “I don’t know if there are any implications for life and health insurance for me or my family, but why risk it?” What should happen when researchers, while sequencing a participant’s…

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Which method works best for analysing ONE sample of scRNA-seq data?

Which method works best for analysing ONE sample of scRNA-seq data? 1 Hello, I currently have a single-cell RNA-seq (scRNA-seq) data of a single person (sample) and i want to perform DE analysis. However, when I run the DESeq() in the DESeq2 package, it shows an error about only one…

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[Solved] Sanger products using ddGTP Mononucleotide Decanucleotide Trinucleotide 12-nucleotide Tetranucleotide 13-nucleotide Pentanucleotide 14-nucle…

A Sanger product of the sequencing of a template DNA is presented… A Sanger product of the sequencing of a template DNA is presented below. Determine the sequence of template DNA and the mRNA sequence from this template DNA. Briefly explain.  Image transcription text Sanger products using ddGTP Mononucleotide Decanucleotide…

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A cell-based phenotypic library selection and screening approach for the de novo discovery of novel functional chimeric antigen receptors

Cell lines and culture Unless stated otherwise, all tumor target cell lines were sourced from the ATCC via LGC Standards. Human endogenous mesothelin (MSLN)-positive target cell lines H-226 (lung carcinoma, MSLN+, ATCC® CRL-5826™) and AsPC-1 (ATCC CRL-1682), and MSLN-negative Raji control cells (ATCC CCL-86) were cultured in RPMI-1640 Glutamax (Life Technologies,…

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Avian mtDNA primers

Avian mtDNA Primers The PDF file below provides details on a complete set of primers for amplifying and sequencing avian mitochondrial DNA. All of the primers have been designed to work with most or all birds and most perform very well in this regard. The document is intended as a…

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Senior Bioinformatics Scientist, Assay Development Analytics Job in California

About KariusKarius is a venture-backed life science startup focused on transforming the way infectious diseases are diagnosed. Combining Next-Generation Sequencing and proprietary data analysis, we can identify over 1,000 pathogens from a single blood sample with typical turnaround time in one business day. By unlocking the information present in…

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Plotting date intervals in ggplot2

I have a dataset which has a bunch of date intervals (i.e. POSIXct format start dates and end dates). In the example provided, let’s say it’s each period is associated to when someone was in school or out of school. I’m interested in plotting the data in ggplot2, each row…

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NuProbe Technology Showcases Quantitative PCR for

Houston, January 18, 2022 (GLOBE NEWSWIRE) – NuProbe, a genomics and molecular diagnostics company that develops ultra-sensitive tests for precision cancer research, today released research demonstrating new technology to qualitatively and quantitatively detect multiple low-grade variants frequency in a quantitative PCR (qPCR reaction). The new allele-specific BDA technology (As-BDA) uses…

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Convert DNAStringSet to a list of elements in R? (Error in seq[[1]][[“seq”]] : subscript out of bounds in R)

I have a bed file which contains DNA sequences information as follow: ** track name=”194″ description=”194 methylation (sites)” color=0,60,120 useScore=1 chr1 15864 15866 FALSE 894 + chr1 534241 534243 FALSE 921 – chr1 710096 710098 FALSE 729 + chr1 714176 714178 FALSE 12 – chr1 720864 720866 FALSE 988 -…

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Why a huge NHS unit is on Nuneaton’s Asda car park

A huge NHS unit is on Nuneaton’s Asda car park as a trail-blazing trial of a new cancer-detecting blood test is under way. As we reported in our newsletter, the town was just one of a handful of areas across the Midlands to be picked as part of the pilot….

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Entheon Biomedical Subsidiary, HaluGen Life Sciences, Announces Agreement with Psychedelics Today

Expanding brand awareness and access to HaluGen’s Psychedelics Genetic Test Kit Vancouver, British Columbia–(Newsfile Corp. – January 18, 2022) – Entheon Biomedical Corp. (CSE: ENBI) (OTCQB: ENTBF) (FSE: 1XU1) (“Entheon” or the “Company“), a biomedical company focused on the research and development of psychedelic drugs and leading-edge biomarkers to provide…

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Comethyl: a network-based methylome approach to investigate the multivariate nature of health and disease

This article was originally published here Brief Bioinform. 2022 Jan 17:bbab554. doi: 10.1093/bib/bbab554. Online ahead of print. ABSTRACT Health outcomes are frequently shaped by difficult to dissect inter-relationships between biological, behavioral, social and environmental factors. DNA methylation patterns reflect such multivariate intersections, providing a rich source of novel biomarkers and…

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Expression of the DNA repair gene XRCC1 in baboon tissues

doi.org/10.1016/0165-7992(95)00053-4Get rights and content Abstract XRCC1 is a DNA repair gene involved in rejoining DNA strand-breaks. We used baboon as an animal model to determine the levels of XRCC1 gene expression in different tisues. Baboons were selected because they are evolutionarily closely related to humans. A single 2.2 kb transcript…

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Phihlikevirus

Phihlikevirus (synonym: PhiH-like viruses) is a genus of viruses in the order Caudovirales, in the family Myoviridae. Bacteria and archaea serve as natural hosts. There is currently only one species in this genus: the type species Halobacterium phage phiH.[1][2] Taxonomy Group: dsDNA [2] Structure Phihlikeviruses are nonenveloped, with a head…

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A Study on Polymorphism of Mitochondrial DNA (mtDNA) in Populations of D.virilis Distributing in Chinese Continent

JIA Zhen-yu, ZHU Ding-liang, GENG Zhen-cheng, T.Aotsuka. A Study on Polymorphism of Mitochondrial DNA (mtDNA) in Populations of D.virilis Distributing in Chinese Continent. Zoological Research, 1995, 16(1): 65-73. Citation: JIA Zhen-yu, ZHU Ding-liang, GENG Zhen-cheng, T.Aotsuka. A Study on Polymorphism of Mitochondrial DNA (mtDNA) in…

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Building Modified DNA topology – User discussions

GROMACS version: 2021.4GROMACS modification: Yes/NoHere post your question I am having trouble generating topology for a type of modified DNA, but I’m not sure how to do it.In fact, there is a 35-nucleotide sequence of ssDNA. Using the Discovery Studio program, I converted the Thymidine Oxygen 4 atom to Sulfur…

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Cell-free DNA for the detection of emerging treatment failure in relapsed/ refractory multiple myeloma

Interrogation of cell-free DNA (cfDNA) represents an emerging approach to non-invasively estimate disease burden in multiple myeloma (MM). Here, we examined low-pass whole genome sequencing (LPWGS) of cfDNA for its predictive value in relapsed/ refractory MM (RRMM). We observed that cfDNA positivity, defined as ≥10% tumor fraction by LPWGS, was…

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Why is mtDNA maternal only? : explainlikeimfive

Mitochondria are kind of like an in-between of cell-organelles and bacteria that live in your cells. They are not made by your cells, but they replicate on their own (by splitting in two). For this, they use their own DNA (the mtDNA), not the DNA of your cells. When an…

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Process Development for the Production and Purification of Adeno-Associated Virus (AAV)2 Vector using Baculovirus-Insect Cell Culture System

In this protocol, AAV2 vector is produced by co-culturing Spodoptera frugiperda (Sf9) insect cells with baculovirus (BV)-AAV2-green fluorescent protein (GFP) or therapeutic gene and BV-AAV2-rep-cap infected Sf9 cells in suspension culture. AAV particles are released from the cells using detergent, clarified, purified by affinity column chromatography, and concentrated by tangential…

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RNA polymerase II trapped on a molecular treadmill: Structural basis of persistent transcriptional arrest by a minor groove DNA binder

Significance Hairpin pyrrole-imidazole (Py-Im) polyamides can be programmed to bind a broad repertoire of DNA sequences. Py-Im small molecules can be used to target cancer-specific coding regions and block transcription elongation. This transcription blockage by Py-Im cannot be rescued by transcription elongation factors, such as TFIIS. The mechanism by which…

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A one-pot CRISPR/Cas13a-based contamination-free biosensor for low-cost and rapid nucleic acid diagnostics

Available online 13 January 2022, 113994 doi.org/10.1016/j.bios.2022.113994Get rights and content Highlights • A one-pot CRISPR/Cas13a-based visual biosensor for the rapid and low-cost nucleic acid detection is proposed. • With a newly developed tube-in-tube vessel used in the biosensor, aerosol cross contamination could be completely avoided. • The sensor can not…

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The role of ATXR6 expression in modulating genome stability and transposable element repression in Arabidopsis

Significance The plant-specific H3K27me1 methyltransferases ATXR5 and ATXR6 play integral roles connecting epigenetic silencing with genomic stability. However, how H3K27me1 relates to these processes is poorly understood. In this study, we performed a comprehensive transcriptome analysis of tissue- and ploidy-specific expression in a hypomorphic atxr5/6 mutant and revealed that the…

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An intronic transposon insertion associates with a trans-species color polymorphism in Midas cichlid fishes

Conflicting results suggest a missing variant In order to narrow down candidates for the causal genetic variant, we performed genome-wide association mapping separately in individual lake populations (previously, association mapping was only performed across the whole species flock5). Interestingly, despite clear association peaks in the crater lakes (Fig. 1a, b), the…

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Study illustrates conservation of immune system’s cell death mechanisms originating billions of years ago in single-celled organisms. — ScienceDaily

The human immune system, that marvel of complexity, subtlety, and sophistication, includes a billion-year-old family of proteins used by bacteria to defend themselves against viruses, scientists at Dana-Farber Cancer Institute and in Israel have discovered. The findings, published online today by the journal Science, are the latest in a growing…

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GWAS and ExWAS of blood Mitochondrial DNA copy number identifies 71 loci and highlights a potential causal role in dementia

Background: Mitochondrial DNA copy number (mtDNA-CN) is an accessible blood-based measurement believed to capture underlying mitochondrial function. The specific biological processes underpinning its regulation, and whether those processes are causative for disease, is an area of active investigation. Methods: We developed a novel method for array-based mtDNA-CN estimation suitable for…

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a Rust-backed Python library for DNA translation that is up to 100x faster than Biopython : bioinformatics

Background: I work at SecureDNA1, where we use Biopython pretty extensively. It’s a great library, but often quite slow, and we’ve run into bottlenecks in our processing pipelines around Biopython’s translation speed. I wrote this library to augment Biopython — you can read your sequences out of FASTA files with…

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A Dark Genome Link to Schizophrenia and Bipolar Disorder

Source: Mahmoud-Ahmed/Pixabay A new study published in Molecular Psychiatry by researchers at the University of Cambridge reported areas located in the dark genome that appear to be associated with schizophrenia and bipolar disorder. These proteins may serve as potential drug targets in addition to biological indicators for distinguishing between the…

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Genetic diversity and selection in Puerto Rican horses

Horses have been considered one of our most prized possessions, used for travel, work, food, and pleasure for at least five and a half millennia17,18,19,20. Nevertheless, the ancestry of various horse breeds and their characteristic traits remains unclear21. In this paper, we describe the patterns and the origins of genetic…

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EXAM 2.docx – EXAM 2 1 In the Stringent Response bacterial rRNA tRNA and protein synthesis temporarily cease in response to depleted nutrients in the

EXAM 21.In the Stringent Response, bacterial rRNA, tRNA, and protein synthesis temporarilycease in response to depleted nutrients in the cell. The stringent response is initiated inthe cell due to:a.an excess of aminoacyl-tRNA that accumulates due to a block in translationb.accumulation of cyclic-AMP in the cellc.metabolite inhibition of isoenzyme function in…

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CRISPR-Cas12a ribonucleoprotein-mediated gene editing in the plant pathogenic fungus Magnaporthe oryzae

. 2021 Dec 24;3(1):101072. doi: 10.1016/j.xpro.2021.101072. eCollection 2022 Mar 18. Affiliations Expand Affiliation 1 Department of Plant Pathology, Kansas State University, Manhattan, KS, USA. Free PMC article Item in Clipboard Jun Huang et al. STAR Protoc. 2021. Free PMC article Show details Display options Display options Format AbstractPubMedPMID . 2021 Dec…

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Estimating individual mtDNA haplotypes in mixed DNA samples by combining MinION and MiSeq

doi: 10.1007/s00414-021-02763-0. Online ahead of print. Affiliations Expand Affiliations 1 Department of Forensic Medicine, Juntendo University School of Medicine, 2-1-1, Hongo, Bunkyo-Ku, Tokyo, 113-8421, Japan. hnakani@juntendo.ac.jp. 2 Department of Forensic Medicine, Saitama Medical University, 38 Morohongo, Moroyama, Saitama, 350-0495, Japan. 3 Department of Forensic Medicine, Juntendo University School of Medicine,…

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ChromoMap: an R package for interactive visualization of multi-omics data and annotation of chromosomes | BMC Bioinformatics

1. Buels R, Yao E, Diesh CM, Hayes RD, Munoz-Torres M, Helt G, Goodstein DM, Elsik CG, Lewis SE, Stein L, et al. JBrowse: a dynamic web platform for genome visualization and analysis. Genome Biol. 2016;17:66. Article  Google Scholar  2. Minio A, Lin J, Gaut BS, Cantu D. How single…

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Lead exposure induces dysregulation of constitutive heterochromatin hallmarks in live cells

This article was originally published here Curr Res Toxicol. 2021 Dec 11;3:100061. doi: 10.1016/j.crtox.2021.12.001. eCollection 2022. ABSTRACT Lead (Pb) is a heavy metal contaminant commonly found in air, soil, and drinking water due to legacy uses. Excretion of ingested Pb can result in extensive kidney damages due to elevated oxidative…

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Global mtDNA Databasing Project | National Institute of Justice

Global mtDNA Databasing Project: AFDIL intends to greatly increase the size and quality of global forensic mtDNA databases openly available to the forensic practitioner community. Using a proven system for high throughput, robotic sequencing, AFDIL will sequence the entire mtDNA control region (CR) of 7,500 target individuals, over a two…

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Genome research: Finding the invisible

Fig. 1: Ladder-seq uses mRNA length information to aid transcriptome reconstruction. Credit: DOI: 10.1038/s41587-021-01136-7 LMU researchers have developed a method to extract more information from sequencing data. This will afford deeper insights into biology. Higher organisms store their genetic material in the nuclei of cells as deoxyribonucleic acid (DNA). In…

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Assistant Professor of bioinformatics and metagenomics at Novo Nordisk Foundation Center for Protein Research

Job title: Assistant Professor of bioinformatics and metagenomics at Novo Nordisk Foundation Center for Protein Research Company: Workscout Job description Job beskrivelse We are looking for a highly motivated and dynamic Assistant Professor for a 4-year position to commence on the 1st of April 2022 or soon hereafter. The position…

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High-throughput, Robust and Highly Time-flexible Method for Surface Sterilization of Arabidopsis Seeds

A high-throughput protocol for the surface sterilization of Arabidopsisthaliana (Arabidopsis) seeds is provided, optimizing the liquid handling steps with a simple suction device constructed with a vacuum pump. Hundreds of seed samples can be surface-sterilized in one day. This protocol improve seed surface sterilization, a fundamental step in functional genomics…

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A modified mutagenic PCR-RFLP method for K-ras codon 12 and 13 mutations detection in NSCLC patients

doi.org/10.1006/mcpr.2001.0367Get rights and content Abstract Evidence from many investigators has shown that mutations in the first exon of K- ras gene occur at elevated frequencies in lung, pancreatic and colon carcinoma and seem to be of prognostic importance. The aim of this study was to develop an effective method for…

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DNA in Unlikely Places Helps Piece Together Ancient Humans’ Family Trees

This story was originally published in our January/February 2022 issue. Click here to subscribe to read more stories like this one. One hundred thousand years ago, Neanderthals gathered in a cave perched 3,000 feet up in present-day Spain’s Atapuerca Mountains. While cooking and watching youngsters wrestle, they littered the floor with DNA…

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Microtubule Plus-End Dynamics Visualization in Huntington’s Disease Model based on Human Primary Skin Fibroblasts

This protocol is dedicated to the microtubule plus-end visualization by EB3 protein transfection to study their dynamic properties in primary cell culture. The protocol was implemented on human primary skin fibroblasts obtained from Huntington’s disease patients. The Huntington’s disease, HD, is an incurable, neurodegenerative pathology caused by a mutation in…

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Anti-dsDNA Testing Specificity for Systemic Lupus Erythematosus: A Systematic Review

Background: Autoantibody specificity in autoimmune diseases is variable due to each patient’s individual spectrum of autoantibodies and the inherent differences between detection methods and tests. Since false-positive results have downstream consequences, we conducted a comprehensive assessment of anti-double stranded DNA (anti-dsDNA) specificity from published studies of systemic lupus erythematosus (SLE)….

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Recombinant Human CD94/KLRD1 Protein, HEK293 Cells, His Tag, 12649-H07H

CD94/KLRD1 Protein, Human, Recombinant (His Tag): 产品信息 纯度 > 95 % as determined by SDS-PAGE 生物活性 Testing in progress 蛋白构建 A DNA sequence encoding the human KLRD1 (Q13241-1) (Lys32-Ile179) was expressed with a polyhistidine tag at the N-terminus. 表达宿主 HEK293 Cells 分子量 The recombinant human KLRD1 consists of…

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EPCAM – PrimePCR Assay and Template | Life Science

Control assays and synthetic DNA templates were designed to facilitate the assessment of the key experimental factors impacting your real-time PCR results. DNA Contamination Control AssayUse the PrimePCR DNA contamination control assay to determine if genomic DNA (gDNA) is present in a sample at a level that may affect PCR…

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Rapid and sensitive point-of-care detection of Leptospira by RPA-CRISPR/Cas12a targeting lipL32.,PLOS Neglected Tropical Diseases

Rapid and sensitive point-of-care detection of Leptospira by RPA-CRISPR/Cas12a targeting lipL32. PLOS Neglected Tropical Diseases ( IF 4.411 ) Pub Date : 2022-01-06 , DOI: 10.1371/journal.pntd.0010112 Sirawit Jirawannaporn,Umaporn…

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1/2 Ashkenazi, 1/2 American white (23&Me, Dnagenics, GEDmatch, MyHeritage) : 23andme

Cool results That’s a clean 50/50 split of Northwest Euro & Ashkenazi on 23andMe. So satisfying lol. DNAgenics seems to have over-allocated Northwestern European. I have personally found their European populations to be off. Gedmatch’s mixed population plotting wasn’t too distant. Giving you a mix of Ashkenazi and Scottish, slightly…

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Comprehensive, hands-on tutorial for DNA-ligand MDS – User discussions

GROMACS version: 2021.4-HomebrewGROMACS modification: No Hello, guys. I am very new to molecular dynamics and I come from biomedical background. Recently, my boss asked me to gather additional data about interaction of a small molecule and an aberrant double-stranded DNA structure. I originally did docking experiments in Vina, and he…

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Google turns AlphaFold loose on the entire human genome

The AI-driven structural predictions are being shared through a public database. Sloan-Kettering Just one week after Google’s DeepMind AI group finally described its biology efforts in detail, the company is releasing a paper that explains how it analyzed nearly every protein encoded in the human genome and predicted its likely…

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Assistant Professor Job – Bioinformatics and Metagenomics, UCPH, Denmark, Jan 2022

The University of Copenhagen invites applications for an Assistant Professor position will be in the Human Proteome Variation group at The Novo Nordisk Foundation Center for Protein Research, Denmark – Jan 2022 Qualification Details Six overall criteria apply for Assistant Professor appointments at the University of Copenhagen. The six criteria…

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Radboud University Medical Center Increases HiFi Sequencing Capacity with PacBio’s Sequel IIe

Added whole genome sequencing capacity enables the SOLVE-RD research program to significantly increase sample throughput MENLO PARK, Calif., Jan. 07, 2022 (GLOBE NEWSWIRE) — PacBio (Nasdaq: PACB), a leading developer of high-quality, highly accurate sequencing platforms, today announced Radboud University Medical Center (Radboudumc) in Nijmegen, the Netherlands will increase their…

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genbank – Github Help

7 1 4 genbank,MetaShot (Metagenomics Shotgun) is a complete pipeline designed for the taxonomic classification of the human microbiota members. In MetaShot, third party tools and new developed Python and Bash scripts are integrated to analyze paired-end (PE) Illumina sequences, offering an automated procedure covering all the analysis steps from…

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Immune-related Prognostic Genes of ccRCC

Introduction Kidney cancer is one of the most commonly diagnosed tumors around the globe.1 According to the statistics from the World Health Organization, annually, there are more than 140,000 RCC-related deaths.2 ccRCC is the most typical subtype of kidney cancer and contributes to the majority of kidney cancer-related deaths.3,4 Until…

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A novel antagonist of TRPM2 and TRPV4 channels: Carvacrol

This article was originally published here Metab Brain Dis. 2022 Jan 6. doi: 10.1007/s11011-021-00887-1. Online ahead of print. ABSTRACT The overload cytosolic free Ca2+ (cCa2+) influx-mediated excessive generation of oxidative stress in the pathophysiological conditions induces neuronal and cellular injury via the activation of cation channels. TRPM2 and TRPV4 channels…

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Comparison of CNV analysis methods: Array CGH vs NGS

Rare genetic disorders are caused by variants in major functional genes. Most are SNV or INDEL variants, but SVs, such as CNVs or chromosomal variants, can also be the cause. Recently, a large-scale study has also been published showing that CNVs were identified in 11-12% more infants and children with…

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NIH Study Shows Using CareDx’s AlloSure Lung for Transplant Surveillance is More Effective than Diagnostic Bronchoscopy at Identifying Rejection

SOUTH SAN FRANCISCO, Calif., Jan. 07, 2022 (GLOBE NEWSWIRE) — CareDx, Inc.,  (Nasdaq: CDNA) – The Transplant Company™ focused on the discovery, development, and commercialization of clinically differentiated, high-value healthcare solutions for transplant patients and caregivers – today announced the results of a study led by the National Institutes of…

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Immuno-CRISPR assay could help diagnose kidney transplant rejection early on — ScienceDaily

When a patient receives a kidney transplant, doctors carefully monitor them for signs of rejection in several ways, including biopsy. However, this procedure is invasive and can only detect issues at a late stage. Now, researchers reporting in ACS’ Analytical Chemistry have developed a CRISPR-based assay that can sensitively and…

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Genetic diagnosis of basal ganglia disease in childhood

This article was originally published here Dev Med Child Neurol. 2022 Jan 5. doi: 10.1111/dmcn.15125. Online ahead of print. ABSTRACT AIM: To correlate clinical, radiological, and biochemical features with genetic findings in children with bilateral basal ganglia lesions of unknown aetiology, and propose a diagnostic algorithm for early recognition. METHOD:…

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The Genetic Architecture of Sleep Health Scores in the UK

Introduction Sleep is a complex neurological and physiological state. It is defined as a natural and reversible state of reduced responsiveness to external stimuli and relative inactivity, accompanied by a loss of consciousness.1 Sleep disorders can be classified as seven major categories: insomnia disorders, sleep-related breathing disorders, central disorders of…

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Identification of differentially expressed genes in AF

Defeng Pan,1,* Yufei Zhou,2,* Shengjue Xiao,1,* Yue Hu,3,* Chunyan Huan,1 Qi Wu,1 Xiaotong Wang,1 Qinyuan Pan,1 Jie Liu,1 Hong Zhu1 1Department of Cardiology, The Affiliated Hospital of Xuzhou Medical University, Xuzhou, Jiangsu, 221004, People’s Republic of China; 2Department of Cardiology, Shanghai Institute of Cardiovascular Diseases, Zhongshan Hospital and Institutes of…

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Decoding gene regulation in the fly brain

1. Li, H. et al. Classifying Drosophila olfactory projection neuron subtypes by single-cell RNA sequencing. Cell 171, 1206–1220 (2017). CAS  PubMed  PubMed Central  Google Scholar  2. Davie, K. et al. A single-cell transcriptome atlas of the aging Drosophila brain. Cell 174, 982–998 (2018). CAS  PubMed  PubMed Central  Google Scholar  3….

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Digital Droplet PCR Method for the Quantification of AAV Transduction Efficiency in Murine Retina

This protocol presents how to quantify AAV transduction efficiency in mouse retina using digital droplet PCR (dd-PCR) together with small scale AAV production, intravitreal injection, retinal imaging, and retinal genomic DNA isolation. In this video, we will show how to quantify AAV transduction in mouse retina using digital droplet PCR…

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Addressing the Challenges of AAV Production

Adeno-associated virus (AAV) vectors are a versatile and appealing gene therapy delivery platform, capable of targeting a wide range of cell types. However, AAV must be produced in a living system, and issues with scalability and high production costs have so far limited the widespread adoption of the technology. Technology…

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Aligning multiple single and paired-end reads from multiple files (lanes)

Rsubread: Aligning multiple single and paired-end reads from multiple files (lanes) 0 Hello, I am new to bioinformatics and looking for some help. I have 27 files from an Illumina output. There are 4 paired end and 23 single read files. I am trying to align them using Rsubread in…

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Caribou Biosciences to Present at 40th Annual J.P. Morgan Healthcare Conference

BERKELEY, Calif., Jan. 04, 2022 (GLOBE NEWSWIRE) — Caribou Biosciences, Inc. (Nasdaq:CRBU), a leading clinical-stage CRISPR genome-editing biopharmaceutical company, announced today that Rachel Haurwitz, Ph.D., Caribou’s president and chief executive officer, will present a corporate update at the 40th Annual J.P. Morgan Healthcare Conference on Thursday, January 13, 2022 at…

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16S rRNA, One of the Most Important rRNAs

The 16S rRNA and 18S rRNA genes are the most frequently used targets for bacteria/archaea and eukaryotes, respectively. Based on the diversity of ribosomal RNA sequences, one can explore the structure of the microbiome in terms of presence and relative abundance. prok. -30S -50S What are the functional components of…

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The direction of your DNA may be as important as which parent it came from

Fig. 1: H19 gene expression was derepressed on the paternally inherited inverted-ICR allele in fetal livers but not in placentas. a Breeding scheme. In order to distinguish parental origin of the alleles by using SNPs between inbred mouse strains, inverted-ICR heterozygous male mice (WT/INV; C57BL/6J [B6] background) were mated with…

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Index of /~psgendb/doc/pkg/last/src

Name Last modified Size Description Parent Directory   –   Alignment.cc 2021-04-13 03:43 16K   Alignment.hh 2021-04-13 03:43 7.0K   AlignmentPot.cc 2021-04-13 03:43 703   AlignmentPot.hh 2021-04-13 03:43 2.1K   AlignmentWrite.cc 2021-04-13 03:43 22K   Alphabet.cc 2021-04-13 03:43 3.6K   Alphabet.hh 2021-04-13 03:43 2.3K   Centroid.cc 2021-04-13 03:43 20K  …

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Dissertations.se: MITOCHONDRIAL CARDIOMYOPATHY

Showing result 1 – 5 of 9 swedish dissertations containing the words mitochondrial cardiomyopathy. Author : Gittan Kollberg; Göteborgs universitet; Göteborgs universitet; Gothenburg University; []Keywords : MEDICIN OCH HÄLSOVETENSKAP; MEDICAL AND HEALTH SCIENCES; Energy metabolism; Mitochondrial Disorders; mtDNA; multiple mtDNA deletions; Alpers-Huttenlocher syndrome; POLG1; GYS1; glycogen synthase; point mutation; Polymerase…

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First time genome editing made possible on cells lining blood vessel walls

Credit: Pixabay/CC0 Public Domain The lab of Youyang Zhao, Ph.D., from Stanley Manne Children’s Research Institute at Ann & Robert H. Lurie Children’s Hospital of Chicago developed a unique nanoparticle to deliver genome editing technology, including CRISPR/Cas9, to endothelial cells, which are cells that line blood vessel walls. This is…

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Molecular biologists: let’s reconnect with nature

Charles Darwin’s voyage on HMS Beagle led to a treasure trove of observations: the behaviour of cuttlefish, a parasitic ichneumon wasp feasting inside live caterpillars, fossils of extinct giant sloths and ‘mastodons’. The result, of course, was his theory of natural selection. Darwin needed the complex natural world to inspire…

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Role of XRCC1, XPC, NBN gene polymorphisms in spermatogenesis

doi.org/10.1016/j.genrep.2021.101238Get rights and content Highlights • Infertility affects up to 15% of couples globally, including up to 12% of all men. • Polymorphisms of the DNA repair system genes may potentially lead to inhibition of spermatogenesis. • XRCC1 Arg280His polymorphism may be associated with asthenozoospermia and oligozoospermia. • Our results…

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Switching from single-stranded to double-stranded DNA limits the unwinding processivity of ring-shaped T7 DNA helicase

Switching from single-stranded to double-stranded DNA limits the unwinding processivity of ring-shaped T7 DNA helicase – Fingerprint — Rutgers, The State University of New Jersey Sort by Weight Alphabetically Medicine & Life Sciences DNA 100% Single-Stranded DNA 72% Bacteriophage T7 43% Morpholinos 39% DNA-Binding Proteins 33% Base Pairing 30% Read…

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Mendelian randomization analyses support causal relationships between blood metabolites and the gut microbiome

1. Wang, J. & Jia, H. Metagenome-wide association studies: fine-mining the microbiome. Nat. Rev. Microbiol. 14, 508–522 (2016). CAS  PubMed  Google Scholar  2. Moschen, A. R. et al. Lipocalin 2 protects from inflammation and tumorigenesis associated with gut microbiota alterations. Cell Host Microbe 19, 455–469 (2016). CAS  PubMed  Google Scholar …

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Genome-wide cfDNA screening: clinical laboratory experience with the first 10,000 cases

doi.org/10.1038/gim.2017.56Get rights and content Abstract Purpose Invasive diagnostic prenatal testing can provide the most comprehensive information about the genetic status of a fetus. Noninvasive prenatal screening methods, especially when using cell-free DNA (cfDNA), are often limited to reporting only on trisomies 21, 18, and 13 and sex chromosome aneuploidies. This…

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Toll-like receptor 2/4 in Chinese patients with sepsis

Introduction Sepsis is a life-threatening organ dysfunction that results from an exaggerated host immune response to disseminate infection.1 Despite improvements in treatment strategies, sepsis remains a leading cause of death in critically ill patients worldwide.2 Low platelet number, known as thrombocytopenia, is common in infectious diseases (also sometimes referred to…

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RedChIP identifies noncoding RNAs associated with genomic sites occupied by Polycomb and CTCF proteins

Abstract Nuclear noncoding RNAs (ncRNAs) are key regulators of gene expression and chromatin organization. The progress in studying nuclear ncRNAs depends on the ability to identify the genome-wide spectrum of contacts of ncRNAs with chromatin. To address this question, a panel of RNA–DNA proximity ligation techniques has been developed. However,…

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SAMD9

cite web | title = Entrez Gene: SAMD9 sterile alpha motif domain containing 9| url = www.ncbi.nlm.nih.gov/sites/entrez?Db=gene&Cmd=ShowDetailView&TermToSearch=54809| accessdate = ] PBB_Summarysection_title = summary_text = References Further reading PBB_Further_reading citations = *cite journal | author=Maruyama K, Sugano S |title=Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with…

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