Tag: Nexus

Cadmium linked to DNA damage and morphological changes caused by particulate matter

Particulate matter causes health problems for those who inhale the fine droplets and particles, but the chemical composition of the mixture matters-;and can vary widely across space and time. Lydia Contreras and colleagues characterize the consequences of varying levels of exposure to three chemically distinct particulate matter mixes, sourced from…

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java – How to set FAIL_ON_UNKNOWN_PROPERTIES to false in openapi-generator-maven-plugin

java – How to set FAIL_ON_UNKNOWN_PROPERTIES to false in openapi-generator-maven-plugin – Stack Overflow Asked today Viewed 14 times I am using openapi-generator-maven-plugin to generate Java files from the swagger yaml files. After conversion, the generated ObjectMapper is configured as FAIL_ON_UNKNOWN_PROPERTIES as true so the ObjectMapper will fail if receiving unknown…

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Senior Bioinformatics Scientist in Chicago, IL for University of Chicago (UC)

Details Posted: 19-Dec-23 Location: Chicago, Illinois Type: Full-time Salary: Open Categories: Research – Laboratory/Non-Laboratory Staff/Administrative Location: Chicago, IL Job Description: Development of an integrated data warehouse for symbiote including clinical, microbiome sequence, and metabolomic data.  Management of DFI Biobank, MMF, and HMMF data within the Symbiote platform. Functional analysis of…

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phylogenetics – How to remove third codon positions from a charset in iqtree?

Yes its easy #nexus BEGIN SETS; charset atp6.fasta = 1-651\3, 2-651\3; charset atp8.fasta = 652-729\3, 653-729\3; charset cob.fasta = 730-1749\3, 731-1749\3; # … so on for every gene END; So for atp6 you will get 1,2,4,5,7,8,10,11 …. up to 651, and so on for each gene. Thus the residues at…

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Rating the Cloud Wars Top 10 CEOs –

With the combined market cap of the Cloud Wars Top 10 companies now exceeding $7 trillion — and take a moment to wrap your noggin around that — it would be easy to assume the CEOs of those world-shaping companies all delivered superb performances in 2023. But is that in…

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Integrative taxonomy of Metastrongylus spp. in wild boars from Brazil | Parasites & Vectors

Study areas The samples were collected from wild boars hunted in rural properties from the municipalities of São Simão, Monte Azul, Paraíso, Colina, Matão, Bebedouro e Monte Alto (São Paulo), Ipiranga (Paraná), and Santo Antônio das Missões (Rio Grande do Sul) (Fig. 1). Fig. 1 Sampling collection sites of wild boars…

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Want Extra Monthly Cash? 1 Dividend Stock to Buy Now and Hold Forever

Image source: Getty Images Written by Amy Legate-Wolfe at The Motley Fool Canada In this market that continues to be quite volatile, it’s clear that finding a great dividend stock holds value. Yet even in any market condition, a great dividend stock is a winner to have on the books….

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How to remove 3rd codon positions in a multiple sequence allignment?

How to remove 3rd codon positions in a multiple sequence allignment? 0 Hello everyone. I need to build a phylogenetic tree using IQ-TREE, starting from a sequence alignment in CODON format of several invertebrates. These are my charsets: BEGIN SETS; charset atp6.fasta = 1-651; charset atp8.fasta = 652-729; charset cob.fasta…

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Lablab.ai’s TruEra Challenge with Google Cloud Vertex AI and TruLens

Delaware, United States, Dec. 05, 2023 (GLOBE NEWSWIRE) —  lablab.ai, an initiative by New Native, proudly announces the TruEra Challenge, slated to commence on Friday, December 1, 2023, at 6:00 PM CET. This hackathon isn’t just a competition; it’s a bold endeavor to redefine AI possibilities, powered by the convergence…

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Prime editing-mediated correction of the CFTR W1282X mutation in iPSCs and derived airway epithelial cells

Abstract A major unmet need in the cystic fibrosis (CF) therapeutic landscape is the lack of effective treatments for nonsense CFTR mutations, which affect approximately 10% of CF patients. Correction of nonsense CFTR mutations via genomic editing represents a promising therapeutic approach. In this study, we tested whether prime editing,…

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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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Maven Central: com.aliyun:aliyun-java-sdk-vpcpeer

Description Aliyun Open API SDK for Java Copyright (C) Alibaba Cloud Computing All rights reserved. 版权所有 (C)阿里云计算有限公司 www.aliyun.com <dependency> <groupId>com.aliyun</groupId> <artifactId>aliyun-java-sdk-vpcpeer</artifactId> <version>1.0.3</version> </dependency> <?xml version=”1.0″ encoding=”UTF-8″ standalone=”yes”?> <project xmlns=”http://maven.apache.org/POM/4.0.0″ xmlns:xsi=”http://www.w3.org/2001/XMLSchema-instance” xsi:schemaLocation=”http://maven.apache.org/POM/4.0.0 maven.apache.org/xsd/maven-4.0.0.xsd“> <modelVersion>4.0.0</modelVersion> <groupId>com.aliyun</groupId> <artifactId>aliyun-java-sdk-vpcpeer</artifactId> <packaging>jar</packaging> <version>1.0.3</version> <name>aliyun-java-sdk-vpcpeer</name> <url>www.aliyun.com</url&gt; <description>Aliyun Open API SDK for Java Copyright (C) Alibaba Cloud Computing…

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Senior Bioinformatics Research Scientist- Data Scientist job with St. Jude Children’s Research Hospital Careers

St. Jude Children’s Research Hospital has an exciting opportunity for a Senior Bioinformatic Research Scientist in the NeuroImage Analysis Core. The NeuroImage Analysis core is in the Department of Developmental Neurobiology (DNB)  is a team of computational scientists with a focus on turning image data into biological knowledge. We utilize computational…

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How To Get Chromosome Position Given Rs Number?

How To Get Chromosome Position Given Rs Number? 3 I have a list of a few hundred SNPs given by rs number. I want to get the chromosome and position for each SNP. For example: input: rs4477212 output: chr1:82154 snp chromosome position • 29k views you can download this information…

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Code, Creativity, and Conundrums: A Journey Through Multifaceted Problem-Solving | by Abdelrahman Mohamed | Nov, 2023

Bridging the Gap Between Code, Creativity, and Personal Growth for Enhanced Problem-Solving Mastery Introduction: Greetings, tech aficionados and creative minds! Today, we’re embarking on a captivating journey that will take us through the intricate web of problem-solving. Join us as we unravel the fascinating parallels between problem-solving in coding, personal…

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Telomouse model provides a valuable resource for in-depth aging and cancer research

Researchers introduce the “Telomouse”. By making a subtle genetic alteration in standard lab mice, they’ve made their telomeres, which protect the chromosome ends, more closely resemble those in humans. Telomeres are critical for maintaining genetic integrity and promoting healthy aging while reducing cancer risk. Standard lab mice have telomeres five…

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Comparison of DNA Extraction Methods for the Detection of Canned Tuna Species with DNA Mini-Barcoding

Tuna is susceptible to species mislabeling due to its high demand, quick rate of production, and wide range of price points. DNA barcoding, a sequencing-based technique, allows for the detection of species mislabeling by targeting a standardized region of DNA. A mitochondrial control region (CR) DNA barcode has been found…

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Phase separation in cGAS-STING signaling

Sun L, Wu J, Du F, Chen X, Chen ZJ. Cyclic GMP-AMP synthase is a cytosolic DNA sensor that activates the type I interferon pathway. Science 2013; 339(6121): 786–791 Article  CAS  PubMed  Google Scholar  Wu J, Sun L, Chen X, Du F, Shi H, Chen C, Chen ZJ. Cyclic GMP-AMP…

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Scientists create special “telomouse” with hu

image:  Telomeres (indicated by the green dots) play a crucial role in safeguarding the chromosome ends (colored in blue). On the right, you can see the notably bright and long telomeres of a normal mouse cell, while the left side showcases comparatively dimmer and shorter human telomeres. At the center,…

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Scientists create special ‘telomouse’ with human-like telomeres

Telomeres (indicated by the green dots) play a crucial role in safeguarding the chromosome ends (colored in blue). On the right, you can see the notably bright and long telomeres of a normal mouse cell, while the left side showcases comparatively dimmer and shorter human telomeres. At the center, Telomouse…

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Metagenomic analysis of gut microbiome and resistome of Whooper and Black Swans: a one health perspective | BMC Genomics

Aslam B, Khurshid M, Arshad MI, Muzammil S, Rasool M, Yasmeen N, Shah T, Chaudhry TH, Rasool MH, Shahid A, et al. Antibiotic resistance: one health one world outlook. Front Cell Infect Microbiol. 2021;11:771510. Article  CAS  PubMed  PubMed Central  Google Scholar  Ahern PP, Faith JJ, Gordon JI. Mining the human…

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Insight Global hiring Bioinformatics Engineer in New York, NY

Job Title: Bioinformatics Engineer Company: Memorial Sloan Kettering Cancer Center – Transformational Research Team within the Center for Molecular Oncology Duration: 12-month – contract Location: Hybrid onsite 2 days a week in NYC at 321 E 61st Street Pay Rate: $62-65 (flexible) Must-haves 5-7 years of experience as a Bioinformatics…

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Importing nexus-formatted tree (e.g. BEAST tree) into R as a phylo object with node labels

Importing nexus-formatted tree (e.g. BEAST tree) into R as a phylo object with node labels 0 I’m trying to import a nexus tree (from BEAST) as a phylo object with node information (I’m specifically interested in the “posterior” values). The methods I tried fail: 1) importing with ape::read.nexus() does not…

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Kaggle hosts a CTF competition organized by the AI Village community with a $50,000 prize pool

TL;DR: Kaggle hosts a CTF competition by AI Village with $50,000 in prizes. 27 hand-crafted machine learning security challenges await participants. The contest aims to foster a hacker mindset and diversity in AI security. The self-paced event began on October 9 and ended on November 9. Prizes range from $8,000…

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Evaluating OpenText Aviator: Emergence of Enterprise AI Platforms

The News: OpenText launches Aviator solution set, which represents the company’s vision and direction for AI. Read the full press release on the OpenText website. Evaluating OpenText Aviator: The Emergence of Enterprise AI Platforms Analyst Take: Mark Barrenchea the CEO and CTO of OpenText, took the stage earlier this week…

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Senior Bioinformatics Research Scientist- Data Scientist job with St. Jude Children’s Research Hospital

St. Jude Children’s Research Hospital has an exciting opportunity for a Senior Bioinformatic Research Scientist in the NeuroImage Analysis Core. The NeuroImage Analysis core is in the Department of Developmental Neurobiology (DNB) is a team of computational scientists with a focus on turning image data into biological knowledge. We utilize…

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Maven Central: com.antgroup.antchain.openapi:openapi-bot:1.8.104

<dependency> <groupId>com.antgroup.antchain.openapi</groupId> <artifactId>openapi-bot</artifactId> <version>1.8.104</version> </dependency> <?xml version=”1.0″ encoding=”UTF-8″ standalone=”yes”?> <project xmlns=”http://maven.apache.org/POM/4.0.0″ xmlns:xsi=”http://www.w3.org/2001/XMLSchema-instance” xsi:schemaLocation=”http://maven.apache.org/POM/4.0.0 maven.apache.org/xsd/maven-4.0.0.xsd“> <modelVersion>4.0.0</modelVersion> <groupId>com.antgroup.antchain.openapi</groupId> <artifactId>openapi-bot</artifactId> <version>1.8.104</version> <packaging>jar</packaging> <name>openapi-bot</name> <description>Ant Chain BOT SDK for Java </description> <url>github.com/alipay/antchain-openapi-prod-sdk</url&gt; <licenses> <license> <name/> <url>www.apache.org/licenses/LICENSE-2.0.txt</url&gt; </license> </licenses> <developers> <developer> <id>alipayproducts</id> <name>Ant Chain SDK</name> <email>alipaysdk@alipay.com</email> </developer> </developers> <distributionManagement> <snapshotRepository> <id>sonatype-nexus-snapshots</id> <url>oss.sonatype.org/content/repositories/snapshots</url&gt; </snapshotRepository> <repository> <id>sonatype-nexus-staging</id>…

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Protistan predation selects for antibiotic resistance in soil bacterial communities

Courtenay M, Castro-Sanchez E, Fitzpatrick M, Gallagher R, Lim R, Morris G. Tackling antimicrobial resistance 2019-2024–the UK’s five-year national action plan. J Hosp Infect. 2019;101:426–7. Article  CAS  PubMed  Google Scholar  D’Costa VM, King CE, Kalan L, Morar M, Sung WW, Schwarz C, et al. Antibiotic resistance is ancient. Nature. 2011;477:457–61….

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Index of /~psgendb/birchhomedir/public_html/doc/local/pkg/MeV_4_8_0/documentation/manual

Name Last modified Size Description Parent Directory   –   2anova1.jpg 2011-09-09 05:55 121K   4.3.1.jpg 2011-09-09 05:55 117K   4.4.1.jpg 2011-09-09 05:55 63K   4.6.1.jpg 2011-09-09 05:55 38K   4.7.1.jpg 2011-09-09 05:55 56K   4.10.1.jpg 2011-09-09 05:55 63K   4.11.1.jpg 2011-09-09 05:55 112K   4.12.1.jpg 2011-09-09 05:55 55K  …

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Gradle catalog does not work correctly with spring boot project – Help/Discuss

pashazadeh (Amir Pashazadeh) October 2, 2023, 12:13pm 1 I have a libs.version.toml file as [versions] boot-version = ‘3.1.4’ cloud-version = ‘2022.0.4’ openapi-version = ‘2.2.0’ [libraries] spring-boot-bom = { module = “org.springframework.boot:spring-boot-dependencies”, version.ref = “boot-version” } spring-boot-actuator = { module=”org.springframework.boot:spring-boot-starter-actuator” } spring-boot-data-jpa = { module=”org.springframework.boot:spring-boot-starter-data-jpa” } spring-boot-data-redis = { module=”org.springframework.boot:spring-boot-starter-data-redis” }…

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Comparative chloroplast genome analysis of four Polygonatum species insights into DNA barcoding, evolution, and phylogeny

Chloroplast genome features of four Polygonatum species In this phase of our study, we pursued the sequencing of four Polygonatum species namely P. filipes, P. cyrtonema, P. zanlanscianense and P. odoratum, using the Illumina HiSeq 2500 sequencing platform. This endeavour yielded a corpus of Illumina reads ranging from 15,915,998 to…

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Bacterial Proteins Play Crucial Role in Methane Clathrate Formation and Stability

Researchers at the Georgia Institute of Technology have made a groundbreaking discovery regarding the formation and stability of methane clathrates. These clathrates, also known as methane ice, are tiny ice cages that hold methane gas in place under the seafloor, preventing it from entering the atmosphere. The study, published in…

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Slurm Blend Replacement at Starfield Nexus

About this mod As it says on the tin, swaps the default Blend drink texture to Slurm from the animated show Futurama.I’m so tired of partyin’. So very tired. I’ll save you the only way I know how… BY PARTYIN! Permissions and credits Credits and distribution permission Other user’s assets…

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From Seafloor to Space: New Bacterial Proteins Shine Light on Climate and Astrobiology

Georgia Tech researchers have uncovered eco-friendly bacterial proteins that stabilize methane clathrates, offering a green solution to climate challenges and potential implications for astrobiology. Gigatons of greenhouse gas are trapped under the seafloor, and that’s a good thing. Around the coasts of the continents, where slopes sink down into the…

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New Bacterial Proteins Illuminate Climate, Astrobiology Studies

Gigatons of greenhouse gas are trapped under the seafloor, and that’s a good thing. Around the coasts of the continents, where slopes sink down into the sea, tiny cages of ice trap methane gas, preventing it from escaping and bubbling up into the atmosphere. While rarely in the news, these…

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a retrospective pilot study [PeerJ]

Introduction Coronavirus disease 2019 (COVID-19) is the greatest worldwide pandemic of the 21st century caused by the highly infectious SARS-CoV-2. According to the World Health Organization (WHO), SARS-CoV-2 has caused more than 768.2 million cases worldwide to date (WHO, 2022b). Although COVID-19 vaccines are being developed rapidly, compared to traditional…

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St. Jude Children’s Research Hospital Senior Bioinformatics Research Scientist- Data Scientist in Memphis, TN | 868634790

St. Jude Children’s Research Hospital has an exciting opportunity for a Senior Bioinformatic Research Scientist in the NeuroImage Analysis Core. The NeuroImage Analysis core is in the   is a team of computational scientists with a focus on turning image data into biological knowledge. We utilize computational tools at the cross-section of biology…

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Sanger Sequencing Specialist in Chicago, IL for University of Chicago (UC)

Details Posted: 13-Sep-23 Location: Chicago, Illinois Type: Full-time Salary: Open Categories: Research – Laboratory/Non-Laboratory Staff/Administrative Location: Chicago, IL Job Description: Interact with end-users on long-range plans for their research projects, setting the appropriate time-line expectations for moving samples through the Sanger Sequencing Facility. Ensure compliance of research activities with institutional,…

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Molecular control of endurance training adaptation in male mouse skeletal muscle

A surprisingly low number of genes define the trained muscle To study differences between untrained and endurance-trained muscles (in the present study, muscle always refers to quadriceps), mice were exercised by treadmill running on 5 d per week for 1 h. After 4 weeks, a significant improvement in running performance was observed (Extended…

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Bioinformatics Programmer 2 – 125140

UCSD Layoff from Career Appointment: Apply by 09/12/2023 for consideration with preference for rehire. All layoff applicants should contact their Employment Advisor. Special Selection Applicants: Apply by 09/22/2023. Eligible Special Selection clients should contact their Disability Counselor for assistance. In 2022, businessman and philanthropist T. Denny Sanford committed $150 million…

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Bioinformatics Cloud Platform Market 2023: User Demand, Services, Emerging Trends, Company Profiles, Revenue Generation and Industry Forecast till 2029

Bioinformatics Cloud Platform Market 2023 Forecast: Unveiling Opportunities and Growth Bioinformatics Cloud Platform market report presents an overview of the market on the basis of key parameters such as market size, revenue, sales analysis and key drivers. The market size of global Bioinformatics Cloud Platform market is anticipated to grow…

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[Trends ] Bioinformatics Cloud Platform Market Growth Drivers

A recent report entitled “Global “Bioinformatics Cloud Platform” Market Trends and Insights” is now available on Orbisresearch.com. Worldwide Bioinformatics Cloud Platform Market: Detailed Market Analysis  In order to address the specific objectives of market players, investors, and business owners, the worldwide Bioinformatics Cloud Platform market study provides a thorough and…

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Preclinical evaluation of EpCAM-binding designed ankyrin repeat proteins (DARPins) as targeting moieties for bimodal near-infrared fluorescence and photoacoustic imaging of cancer

Sung H, Ferlay J, Siegel RL, Laversanne M, Soerjomataram I, Jemal A, et al. Global cancer statistics 2020: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries. CA Cancer J Clin. 2021;71(3):209–49. doi.org/10.3322/caac.21660. Article  PubMed  Google Scholar  Khan MA, Hakeem AR, Scott N, Saunders RN. Significance…

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Phase 3

SRC: Emergency assistance to IDP – Winterization 01.08.2022 – 31.12.2023 In expectation of the winter in Ukraine, the Swiss Red Cross in collaboration with the Ukrainian Red Cross Society improve living conditions in collective centers and host community facilities, and provide durable accommodation solutions for Internal Displaced Persons through winterization…

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The Y-ome Conundrum: Insights into Uncharacterized Genes and Approaches for Functional Annotation

Csako G (2006) Present and future of rapid and/or high-throughput methods for nucleic acid testing. Clin Chim Acta 363:6–31. doi.org/10.1016/j.cccn.2005.07.009 Article  CAS  PubMed  Google Scholar  Sanger F, Coulson AR, Friedmann T et al (1978) The nucleotide sequence of bacteriophage φX174. J Mol Biol 125:225–246 Article  CAS  PubMed  Google Scholar  Sawicki…

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Exome sequencing identifies breast cancer susceptibility genes and defines the contribution of coding variants to breast cancer risk

UKB The UKB is a population-based prospective cohort study of more than 500,000 subjects. More detailed information on the UKB is given elsewhere34,35. The study received ethics approval from the North West Multi-center Research Ethics Committee. All participants signed written informed consent before participating. WES data for 450,000 subjects were…

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Senior Bioinformatics Research Scientist job with St. Jude Children’s Research Hospital

St. Jude Children’s Research Hospital has an exciting opportunity for a Senior Bioinformatic Research Scientist in the NeuroImage Analysis Core. The NeuroImage Analysis core is in the Department of Developmental Neurobiology (DNB) is a team of computational scientists with a focus on turning image data into biological knowledge. We utilize…

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St. Jude Children’s Research Hospital Senior Bioinformatics Research Scientist in Memphis, TN | 861220934

St. Jude Children’s Research Hospital has an exciting opportunity for a Senior Bioinformatic Research Scientist in the NeuroImage Analysis Core. The NeuroImage Analysis core is in the   is a team of computational scientists with a focus on turning image data into biological knowledge. We utilize computational tools at the cross-section of biology…

Continue Reading St. Jude Children’s Research Hospital Senior Bioinformatics Research Scientist in Memphis, TN | 861220934

Maven Central: com.yunzhanghu.openapi:sdk:1.4.9-RELEASE

Overview 云账户综合服务平台官方 SDK for Java,支持 Java JDK 1.8 及以上版本 Copyright © 2013 – 2023 云账户技术(天津)有限公司 云账户开放平台:https://open.yunzhanghu.com <dependency> <groupId>com.yunzhanghu.openapi</groupId> <artifactId>sdk</artifactId> <version>1.4.9-RELEASE</version> </dependency> <?xml version=”1.0″ encoding=”UTF-8″?> <project xmlns=”http://maven.apache.org/POM/4.0.0″ xmlns:xsi=”http://www.w3.org/2001/XMLSchema-instance” xsi:schemaLocation=”http://maven.apache.org/POM/4.0.0 maven.apache.org/xsd/maven-4.0.0.xsd“> <modelVersion>4.0.0</modelVersion> <groupId>com.yunzhanghu.openapi</groupId> <artifactId>sdk</artifactId> <version>1.4.9-RELEASE</version> <name>yzh-sdk</name> <description>云账户综合服务平台官方 SDK for Java,支持 Java JDK 1.8 及以上版本 Copyright © 2013 – 2023 云账户技术(天津)有限公司 云账户开放平台:https://open.yunzhanghu.com</description> <url>github.com/YunzhanghuOpen/sdk-java</url&gt;…

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Postdoctoral Scientist – Jones Lab

Details Posted: 10-Aug-23 Location: Los Angeles, California Type: Full-time Salary: Open Internal Number: HRC1341107 Principal Investigator, Michelle Jones, PhD, is looking for a Postdoctoral Scientist to join her lab! The Cedars-Sinai Center for Bioinformatics and Functional Genomics (CBFG) is an integrated, interdisciplinary research group established in 2016, with the common…

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Cedars-Sinai hiring Postdoctoral Scientist – Jones Lab – Center for Bioinformatics and Functional Genomics in Los Angeles, California, United States

OverviewCedars-Sinai is a hub for biomedical research and a training center for future physicians and other healthcare professionals. By joining us in an academic role, you’ll be a part of formulating future ideas for discovery and then translating those discoveries into cures for the benefit and health of the Los…

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Arequipa Nexus Institute in Peru receives $4 million for phase 3 funding

WEST LAFAYETTE, Ind. – The multiphase collaboration Arequipa Nexus Institute for Food, Energy, Water and the Environment has received funding for a third phase of projects from Universidad Nacional de San Agustín. Launched in March 2018 by UNSA in Arequipa, Peru, and Purdue University, the institute is an innovative collaboration focused…

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Here’s Why This Report Named Crypto Economists Among High Demand Jobs By 2028

A recent report has named crypto economists as one of the professions that will be in higher demand by 2028. Renewable energy and cybersecurity specialists, bioinformatics engineers, and artificial intelligence ethicists are the other professions forecasted by labor market experts from Personal Service to have increased demand in the next…

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DPYSL2/CRMP2 isoform B knockout in human iPSC-derived glutamatergic neurons confirms its role in mTOR signaling and neurodevelopmental disorders

Quach TT, Honnorat J, Kolattukudy PE, Khanna R, Duchemin AM. CRMPs: Critical molecules for neurite morphogenesis and neuropsychiatric diseases. Mol Psychiatry. 2015;20:1037–45. Article  CAS  Google Scholar  Moutal A, White KA, Chefdeville A, Laufmann RN, Vitiello PF, Feinstein D, et al. Dysregulation of CRMP2 post-translational modifications drive its pathological functions. Mol…

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WD repeat domain 82 (Wdr82) facilitates mouse iPSCs generation by interfering mitochondrial oxidative phosphorylation and glycolysis

Austenaa LMI, Barozzi I, Simonatto M, Masella S, Chiara GD, Ghisletti S, Curina A, Wit ED, Bouwman BAM, Pretis SD, Piccolo V, Termanini A, Prosperini E, Pelizzola M, Laat WD, Natoli G (2015) Transcription of mammalian cis-regulatory elements is restrained by actively enforced early termination. Mol Cell 60(3):460–474 Article  CAS …

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using vg on DNA-nexus platform

using vg on DNA-nexus platform 0 I have data stored on the DNA-Nexus cloud service and I would like to utilize the vg tool, particularly the giraffe alignment tool, with this data. I attempted to open a dxjupiterlab environment and used the terminal to install vg. However, after installation, the…

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The Value of Cell-Free Circulating DNA Profiling in Patients with Skin Diseases

Alix-Panabières C, Pantel K (2021) Liquid biopsy: from discovery to clinical application [J]. Cancer Discov 11(4):858–873 CrossRef  PubMed  Google Scholar  Shohdy KS, West HJ (2020) Circulating tumor DNA testing—liquid biopsy of a cancer [J]. JAMA Oncol 6(5):792–792 CrossRef  PubMed  Google Scholar  Page K, Shaw JA, Guttery DS (2019) The liquid…

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Targeting cGAS/STING signaling-mediated myeloid immune cell dysfunction in TIME | Journal of Biomedical Science

Kennel KB, Greten FR. Immune cell-produced ROS and their impact on tumor growth and metastasis. Redox Biol. 2021;42: 101891. Article  CAS  PubMed  PubMed Central  Google Scholar  Kirtonia A, Sethi G, Garg M. The multifaceted role of reactive oxygen species in tumorigenesis. Cell Mol Life Sci. 2020;77:4459–83. Article  CAS  PubMed  Google…

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Whole mitogenomes reveal that NW Africa has acted both as a source and a destination for multiple human movements

Callaway, E. Oldest Homo sapiens fossil claim rewrites our species’ history. Nature. doi.org/10.1038/NATURE.2017.22114 (2017). Article  PubMed  Google Scholar  Lucas-Sánchez, M., Serradell, J. M. & Comas, D. Population history of North Africa based on modern and ancient genomes. Hum. Mol. Genet. 30(R1), R17–R23. doi.org/10.1093/HMG/DDAA261 (2021). Article  PubMed  Google Scholar  Scerri, E….

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Scientists Have Managed To Knock Out The Gene That Causes An

Mental health plays a crucial role in our overall well-being, impacting our ability to function, work, and maintain healthy relationships with others. Anxiety disorders, encompassing conditions like generalized anxiety disorder, panic disorder, and social anxiety disorder, involve excessive fear and worry that can severely distress individuals and impair their daily…

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New non-invasive CRISPR technique eliminates anxiety in mice

Anyone who has ever experienced anxiety knows firsthand how debilitating it can be. It’s also quite common. According to the World Health Organization (WHO), in 2019, 301 million people around the globe were living with an anxiety disorder, including 58 million children and adolescents. Now, researchers may have found a…

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First-of-its-kind noninvasive CRISPR method knocks out anxiety gene

Anxiety affects many people, and for some, medication doesn’t help. Researchers have developed a novel, noninvasive method of delivering CRISPR/Cas9 gene-editing technology into the brain – previously a challenge – to knock out a gene that causes anxiety. While the technique has so far only been used on mice, the…

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CRISPR/Cas9 Delivery System Reduces Chronic Anxiety in Mice

Previous studies in mice have shown that gene editing may be used to potentially treat conditions such as anxiety. While CRISPR/Cas9 represents a revolutionary gene editing technology, its delivery to the brain is fraught with challenges that current delivery systems do not completely address. A key bottleneck challenge is bypassing…

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Intranasal delivery of CRISPR/Cas9 therapeutics may help treat chronic anxiety

A study in mice reports a CRISPR/Cas9 gene-editing delivery system, capable of bypassing the blood-brain-barrier and modulating neuronal receptor pathways, to treat chronic anxiety. Troy Rohn and colleagues targeted 5HT-2A, a serotonin receptor known to play a role in anxiety and depression. The authors used a vector based on an…

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Defining an optimal control for RNAi experiments with adult Schistosoma mansoni

Obbard, D. J., Gordon, K. H. J., Buck, A. H. & Jiggins, F. M. The evolution of RNAi as a defence against viruses and transposable elements. Philos. Trans. R. Soc. Lond. B Biol. Sci. 364, 99–115 (2009). Article  CAS  PubMed  Google Scholar  Almeida, M. V., Andrade-Navarro, M. A. & Ketting,…

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New project request for spring-boot-3-openapi-archetype Maven archetype project

UPDATE: If you are a Maven Central user and looking for the OSSRH or MVNCENTRAL projects, you can continue to use this JIRA. Sonatype is fully committed to supporting its Open Source Software Repository Hosting service, which relies on the projects above. The messaging below is meant for Sonatype employees…

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Bioinformatics and system biology approach to identify potential common pathogenesis for COVID-19 infection and osteoarthritis

Hunter, D. J. & Bierma-Zeinstra, S. Osteoarthritis. Lancet 393, 1745–1759 (2019). Article  CAS  PubMed  Google Scholar  Puig-Junoy, J. & Ruiz Zamora, A. Socio-economic costs of osteoarthritis: A systematic review of cost-of-illness studies. Semin. Arthritis Rheum. 44, 531–541 (2015). Article  PubMed  Google Scholar  Hunter, D. J., March, L. & Chew, M….

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Strengthening agricultural systems through plant-breeding and tools for farmers

Open this photo in gallery: Efforts to improve outcomes for farmers, such as the Kernen Farm, at the University of Saskatchewan’s Crop Development Centre include research on disease pressures on wheat and pea crops and plant breeding.AIRSCAPES Farm productivity is subject to a complex web of conditions. On the economic…

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Minoryx to start trial for cerebral adrenoleukodystrophy patients

Spanish-headquartered Minoryx Therapeutics says the U.S. Food and Drug Administration (FDA) has approved its phase 3 clinical trial (CALYX) of lead candidate leriglitazone, to treat adult male X-linked adrenoleukodystrophy (X-ALD) patients with cerebral adrenoleukodystrophy (cALD).  X-ALD is an orphan neurodegenerative disease. The global incidence of X-ALD is approximately six to…

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Broad Institute Data Sciences Platform Aims to Provide Infrastructure, Tools for Global Genomics

NEW YORK – The Broad Institute’s Data Sciences Platform (DSP) keeps improving the storage, analysis, and management of ever-growing genomic datasets, enabling researchers around the world to do their work. The platform is among the institute’s two largest operations, along with the sequencing center, known as the Genomics Platform. With…

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Whole Genome Sequencing of Levilactobacillus brevis HQ1-1 for Understanding the Characteristics of Its Antibiotic Resistance Genes

Albert, T.J., Dailidiene, D., Dailide, G., Norton, J.E., Kalia, A., Richmond, T.A., Molla, M., Singh, J., Green, R.D., and Berg, D.E., Mutation discovery in bacterial genomes: metronidazole resistance in Helicobacter pylori, Nat. Methods, 2005, vol. 2, no. 12, pp. 951–953. Article  CAS  PubMed  Google Scholar  Ammor, M.S., Flórez, A.B., and…

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Problem with PGDSpider v 2.1.0.2

Problem with PGDSpider v 2.1.0.2 0 Hello!, I am trying to run PGDSpider v 2.1.0.2 on command line on ubuntu 14.04 but PGDSpider can’t write the outputfile, INFO message is: initialize convert process… read input file… read input file done. write output file… Unable to write outputfile! and there’s a…

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Distribution and diversity of ‘Tectomicrobia’, a deep-branching uncultivated bacterial lineage harboring rich producers of bioactive metabolites

Amann RI, Ludwig W, Schleifer KH. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev. 1995;59:143–69. CAS  PubMed  PubMed Central  Google Scholar  Konstantinidis K, Rosselló-Móra R, Amann R. Uncultivated microbes in need of their own taxonomy. ISME J. 2017;11:2399–406. PubMed  PubMed Central  Google Scholar  Parks…

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Europe Circulating Biomarkers and Extracellular Vesicles Annual Conference 2023 (Rotterdam, Netherlands

DUBLIN, May 26, 2023 /PRNewswire/ — The “5th Annual Circulating Biomarkers and Extracellular Vesicles Europe 2023” conference has been added to  ResearchAndMarkets.com’s offering. The Circulating Biomarkers & Extracellular Vesicles Europe 2023 Conference to be held at the Hilton Rotterdam, The Netherlands. This annual conference brings together academics and industry participants from…

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Setting up conda channels – Sonatype Nexus Repository

I have a self-hosted Nexus server running on AWSVersion Sonatype Nexus RepositoryOSS 3.54.1-01 I currently have Conda set up (as a proxy) and I would like to add 2 additional channels to this conda proxy – bioconda and conda-forge I am having trouble with the configuration for this – do…

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Configure JupyterHub to Use Nexus Repositories – discuss

We use Nexus as our internal repo. What configuration modifications do we need to make to route pip and cran calls inside JupyterHub to our internal Nexus repos. Hi. Do you mean you want to redirect calls made from a shell in a singleuser server such as JupyterLab to PyPI…

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Indel driven rapid evolution of core nuclear pore protein gene promoters

Lin, D. H. & Hoelz, A. The structure of the nuclear pore complex (an update). Annu. Rev. Biochem. 88, 725–783. doi.org/10.1146/annurev-biochem-062917-011901 (2019). Article  CAS  PubMed  PubMed Central  Google Scholar  Cabal, G. G. et al. SAGA interacting factors confine sub-diffusion of transcribed genes to the nuclear envelope. Nature 441, 770–773 (2006)….

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Hallmarks of cardiovascular ageing | Nature Reviews Cardiology

Bergmann, O. et al. Evidence for cardiomyocyte renewal in humans. Science 324, 98–102 (2009). Article  CAS  PubMed  PubMed Central  Google Scholar  Senyo, S. E. et al. Mammalian heart renewal by pre-existing cardiomyocytes. Nature 493, 433–436 (2013). Article  CAS  PubMed  Google Scholar  Bergmann, O. et al. Dynamics of cell generation and…

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CEDARS-SINAI Postdoctoral Scientist – Knott Lab – Bioinformatics & Functional Genomics in San Fernando, CA | 840665798

Principal Investigator, Simon Knott, PhD is looking for a Postdoctoral Scientist to join the team! The Cedars-Sinai Center for Bioinformatics and Functional Genomics (CBFG) is an integrated, interdisciplinary research group with the common goal of developing end-to-end research workflows for genomic and high-throughput functional analysis of patient samples. The primary…

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Modeltest-ng and MrBayes

Modeltest-ng and MrBayes 0 Hi everyone, I have recently started using modeltest-ng for my phylogenetic analyses model selection. The program conveniently outputs the model (and even the command line) to use it with popular phylogenetics software like raxml, iqtree, paup, or raxml-ng. This is the easy part. I am, however…

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Research Assistant in the Center for Genomics and Systems Biology (Chemical and Functional Genomics) job with NEW YORK UNIVERSITY ABU DHABI

Description The Center for Genomics and Systems Biology (CGSB) at New York University Abu Dhabi (NYUAD) is seeking to appoint a full-time Research Assistant in the Chemical and Functional Genomics Laboratory to work on a project aiming to find novel biocontrol agents to manage the spread of Red Palm weevils…

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Translational Bioinformatics Scientist Create My Career Page

 Job Description: Urgently Required at Translational Bioinformatics are seeking a highly motivated and innovative computational biologist to join our global team based in Belgium. Provisionally for a 12 month contract, you will be part of a highly motivated, multi-disciplinary team driven by a passion to improve our understanding of the…

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which one I have to take ?

RAxML outputs: which one I have to take ? 1 Hi, RAxML produces 3 kinds of output at then end. I am a totally beginner in phylogenie. Could someone explain what are the differences and which one I have to take for analysis? Thanks a lot. RAxML output • 11k…

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Identification and pathogenicity analysis of leaf brown spot of Juglans regia in China

Sample collection and isolation The occurrence of walnut brown spot in walnut main producing area of Guangyuan City, Sichuan Province, China was investigated. Guangyuan is located in the northeast of Sichuan Province (36 32′ n, 105 52′E). Located in the south of the Qinling Mountains, this area is the north–south…

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Postdoctoral Scientist – Knott Lab – Bioinformatics & Functional Genomics job with CEDARS-SINAI

Principal Investigator, Simon Knott, PhD is looking for a Postdoctoral Scientist to join the team! The Cedars-Sinai Center for Bioinformatics and Functional Genomics (CBFG) is an integrated, interdisciplinary research group with the common goal of developing end-to-end research workflows for genomic and high-throughput functional analysis of patient samples. The primary…

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M2GEN Rebrands to Aster Insights

Leading oncology bioinformatics company unveils new name, logo, and website as part of transformative rebranding initiative TAMPA, Fla., April 14, 2023 /PRNewswire/ — M2GEN, an oncology bioinformatics company with the most advanced lifetime-consented clinicogenomic data to accelerate medical product discovery, today announced it is rebranding, changing the company’s name to Aster…

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Ubuntu Manpage: Bio::AlignIO::nexus – NEXUS format sequence input/output stream

Provided by: libbio-perl-perl_1.7.2-2_all NAME Bio::AlignIO::nexus – NEXUS format sequence input/output stream SYNOPSIS Do not use this module directly. Use it via the Bio::AlignIO class. use Bio::AlignIO; my $in = Bio::AlignIO->new(-format => ‘nexus’, -file => ‘aln.nexus’); while( my $aln = $in->next_aln ) { # do something with the alignment } DESCRIPTION…

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TileDB Launches Cross-Language Access to Single-Cell Data

TileDB database first to implement an open data model and API specification, enabling rapid cloud-optimized analysis of large single-cell datasets CAMBRIDGE, Mass., March 28, 2023–(BUSINESS WIRE)–TileDB, the database for any complex data and compute, today announced the launch of TileDB–SOMA, the first collection of software libraries that implement the open-source…

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Biomedical Specialist – Bioinformatics & Functional Genomics Core at Cedars-Sinai

The Cedars-Sinai Center for Bioinformatics and Functional Genomics (CBFG) is an integrated, interdisciplinary research group established in 2016, with the common goal of developing end-to-end research workflows for genomic and high-throughput functional analysis of patient samples. Led by director, Simon Gayther, PhD, the primary goals of the CBFG are to…

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Real-time Analytics News for Week Ending March 25

In this week’s real-time analytics news: The Gartner Data & Analytics Summit and the NVIDIA GTC conference generated numerous announcements. Keeping pace with news and developments in the real-time analytics market can be a daunting task. Fortunately, we have you covered with a summary of the items our staff comes…

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Domino Data Lab’s Spring Release Offers Accessible and Accelerated AI Innovation

Domino Data Lab, the enterprise MLOps platform company, is announcing updates to its platform that will drive accessibility to open source tools and techniques—including Ray 2.0, MLflow, and Feast’s feature store for machine learning (ML)—allowing enterprises to see tangible value from their AI, sooner. The announcement is also accompanied…

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Karolinska Institute researchers discover new leukemia mechanism

Researchers at Lund University Faculty of Medicine in Sweden have determined a novel mechanism linking the metabolism of ribonucleic acids, RNA, to the development of leukemia in myelodysplastic syndrome patients, MDS. In a study published in the Molecular Cell journal, they explain what makes hematopoietic stem cells acquire malignant traits…

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What makes blood stem cells transform?

Researchers at Lund University Faculty of Medicine in Sweden have determined a novel mechanism linking the metabolism of ribonucleic acids, RNA, to the development of leukemia in myelodysplastic syndrome patients, MDS. In a study published in the Molecular Cell journal, they explain what makes hematopoietic stem cells acquire malignant traits…

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mrbayes segmentation fault

Hello, I have tried running mrbayes-v3.2.6 on my university cluster with a text block in my nexus file, as below: begin mrbayes; set autoclose=yes nowarn=yes; CHARSET mtgenome = 1-16701; partition favored = 1: mtgenome; set partition = favored; unlink shape=(all) pinvar=(all) statefreq=(all) revmat=(all) tratio=(all); prset applyto=(all) ratepr=variable; lset applyto=(1) nst=2…

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NIH 2019 Discovery of cGAS Inhibitors for Interferon-Driven Autoimmune Diseases

Cytoplasmic nucleic acids alert the immune system to invading pathogens and trigger a robust type I interferon (IFN) response via activation of the STING (stimulator of interferon genes) receptor. The sensor for cytoplasmic nucleic acids was recently discovered to be cyclic GMP-AMP synthase, an enzyme that produces a unique cyclic…

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A Potential New Target for Head and Neck Cancer Immunotherapy

Article Content Researchers at University of California San Diego School of Medicine and UC San Diego Moores Cancer Center have identified a strong association between the product of a gene expressed in most cancers, including the most common type of head and neck cancer, and elevated levels of white blood…

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Study suggests a new way to develop intra-tumor immunotherapies to fight head and neck cancer

Researchers at University of California San Diego School of Medicine and Moores Cancer Center at UC San Diego Health have identified a strong association between the product of a gene expressed in most cancers, including the most common type of head and neck cancer, and elevated levels of white blood…

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How to convert PHYLIP to NEWICK format

How to convert PHYLIP to NEWICK format 0 Hi, I’m stuck on how to convert a pairwise-distance matrix or phylim format into newick format. Newick format is the required input for plotting a tree for many programs yet there seems to me no straightforward method on how to build a…

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Public Cloud Providers At MWC 23 Lure Telecommunication Companies

At Mobile World Congress 2023, public cloud providers showcase their offerings in an effort to entice telecom companies. Here are the highlights of the announcements from Amazon Web Services, Microsoft Azure, and Google Cloud Platform. Modern Network Pixabay Amazon Web Services at MWC AWS has two key announcements – the…

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Podcast Review Ganging up | Morning Star

TrashfutureBackyard Comedy Clubwww.trashfuture.co.uk  I AM in the only room left in Britain where the mention of Matt Hancock gets a cheer. I’m not at a masochistic Tory fringe event, or at the disastrous former minister’s birthday party. Instead, I’m at a sold out live recording of a left-wing podcast, with…

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