Tag: DNA-seq

Technical Support Overview | DNA Sequencing Software

Here are a few useful technical support documents for current versions of Sequencher running on both Macintosh and Windows computers. Sequencher Installation Instructions For help installing Sequencher on either Windows or Macintosh: DNA-Seq Tools Installation Instructions For help installing DNA-Seq Tools, including FastQC, for use with Sequencher on either Windows…

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Computational Biology, Bioinformatics Internship – Summer 2024 at Takeda Pharmaceutical

By clicking the “Apply” button, I understand that my employment application process with Takeda will commence and that the information I provide in my application will be processed in line with Takeda’sPrivacy Noticeand Terms of Use. I further attest that all information I submit in my employment application is true…

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Thyroid hormone-regulated chromatin landscape and transcriptional sensitivity of the pituitary gland

Mouse genetic models The ThrbHAB allele expresses TRβ proteins (TRβ1 and TRβ2) fused to a peptide with a hemagglutinin (HAx2) tag and a site for biotinylation by prokaryotic BirA ligase, modified from a published tag30. The tag was inserted at the endogenous Thrb gene by homologous recombination in W9.5 (129/Sv)…

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Analyzing somatic mutations by single-cell whole-genome sequencing

Failla, G. The aging process and cancerogenesis. Ann. N. Y. Acad. Sci. 71, 1124–1140 (1958). Article  CAS  PubMed  Google Scholar  Szilard, L. On the nature of the aging process. Proc. Natl Acad. Sci. USA 45, 30–45 (1959). Article  CAS  PubMed  PubMed Central  Google Scholar  Vijg, J. & Dong, X. Pathogenic…

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Intrinsic deletion at 10q23.31, including the PTEN gene locus, is aggravated upon CRISPR-Cas9-mediated genome engineering in HAP1 cells mimicking cancer profiles

Introduction The CRISPR-Cas system is a widely used genome engineering technology because of its simple programmability, versatile scalability, and targeting efficiency (Wang & Doudna, 2023). Although researchers are rapidly developing CRISPR-Cas9 tools, the biggest challenge remains to overcome undesired on- and off-targeting outcomes. Previous studies have reported unintended genomic alterations,…

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MD Anderson Cancer Center hiring Associate Bioinformatics Data Scientist in Houston, TX

SummaryThe University of Texas MD Anderson Cancer Center in Houston is one of the world’s most respected centers focused on cancer patient care, research, education and prevention. It was named the nation’s No. 1 hospital for cancer care in U.S. News & World Report’s 2022-2023 rankings. It is one of…

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Senior Bioinformatician – Centogene, Berlin or Remote

Senior Bioinformatician – Centogene, Berlin or Remote Senior Bioinformatician Centogene Berlin or Remote, Germany Your tasks and responsibilities: We are looking for senior Bioinformatician to join in the R&D bioinformatics team in either Berlin or remotely from all over the world. You will be responsible for developing new bioinformatics pipelines…

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:: FINAL CALL :: A Practical Introduction to NGS Data Analysis (Nov 29 – Dec 1, 2023 in Munich, Germany)

News::: FINAL CALL :: A Practical Introduction to NGS Data Analysis (Nov 29 – Dec 1, 2023 in Munich, Germany) – only 2 seats left 3 Next-Generation Sequencing Data Analysis: A Practical Introduction Advance your research. Understand NGS and analyze sequenced data yourself. When? Nov 29 – Dec 1, 2023…

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:: LAST CALL :: A Practical Introduction to NGS Data Analysis (Nov 29

News::: LAST CALL :: A Practical Introduction to NGS Data Analysis (Nov 29 – Dec 1, 2023 in Munich, Germany) 1 Next-Generation Sequencing Data Analysis: A Practical Introduction Advance your research. Understand NGS and analyze sequenced data yourself. When? Nov 29 – Dec 1, 2023 Where? Munich, Germany Link? www.ecseq.com/workshops/workshop_2023-09-NGS-Next-Generation-Sequencing-Data-Analysis-A-Practical-Introduction…

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A Practical Introduction to NGS Data Analysis (Nov 29

News:A Practical Introduction to NGS Data Analysis (Nov 29 – Dec 1, 2023 in Munich, Germany) 0 Next-Generation Sequencing Data Analysis: A Practical Introduction Advance your research. Understand NGS and analyze sequenced data yourself. When? Nov 29 – Dec 1, 2023 Where? Munich, Germany Link? www.ecseq.com/workshops/workshop_2023-09-NGS-Next-Generation-Sequencing-Data-Analysis-A-Practical-Introduction In a nutshell Learn…

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TET2 modulates spatial relocalization of heterochromatin in aged hematopoietic stem and progenitor cells

Animal models Animal studies were approved by the Institutional Animal Care Use Committee of the Institute of Biosciences and Technology, Texas A&M University (AUP 2020-0195). Most mouse strains bear a C57BL/6 genetic background unless otherwise noted. All the animals were housed in a certified animal facility with a standard dark/light…

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Senior Research Scientist, Bioinformatics – Generous Compensation at Ex Libris in Barcelona

We are looking to hire a confident Senior Research Scientist, Bioinformatics to join our dedicated team at Ex Libris in Barcelona.Growing your career as a Full Time Senior Research Scientist, Bioinformatics is an amazing opportunity to develop key skills.If you are strong in adaptability, teamwork and have the right work…

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Harvard’s Jason Buenrostro wins MacArthur grant for genetics work

The youngest of this year’s class of MacArthur “genius grant” fellows, 35-year-old Jason Buenrostro was just a graduate student when he pioneered a technique that’s become a mainstay for studying how cells regulate gene expression. While doing his doctoral work at Stanford University, with geneticists William Greenleaf and Howard Chang,…

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Multi-faceted attributes of salivary cell-free DNA as liquid biopsy biomarkers for gastric cancer detection

Background: Recent advances in circulating cell-free DNA (cfDNA) analysis from biofluids have opened new avenues for liquid biopsy (LB). However, current cfDNA LB assays are limited by the availability of existing information on established genotypes associated with tumor tissues. Certain cancers present with a limited list of established mutated cfDNA…

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GenomicStar hiring Bioinformatics Data Analyst in Chennai, Tamil Nadu, India

Position: Bioinformatics Data Analyst Company: GenomicStar – A SaaS based Precision Medicine Platform Job Purpose: The Bioinformatics Data Analyst will play a critical role in the development, validation, and implementation of data analysis pipelines for various genetic test panels, incorporating state-of-the-art AI techniques. This role is integral to our commitment…

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Good alignment rate for DNA-seq data

Good alignment rate for DNA-seq data 1 Hi scientists, I have 80 DNA-seq samples. Alignment rate for 70 samples is good higher than 95% but low alignment rate is observed for remaining 10 samples ranging from 4 to 78 percent. I used reference genome for alignment of reads. Anyone please…

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October 2023 – News & Events

Redwood City native is the first Bronco to receive the prestigious award. Redwood City native is the first Bronco to receive the prestigious award. SANTA CLARA, Calif., Oct. 4, 2023—Santa Clara University alumnus Jason D. Buenrostro, Ph.D., has been named a 2023 MacArthur Fellow.  Buenrostro received a Bachelor of Science…

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FINAL CALL: Online Course – A Practical Introduction to NGS Data Analysis

News:FINAL CALL: Online Course – A Practical Introduction to NGS Data Analysis – October 23-25, 2023 1 Online Course – A Practical Introduction to NGS Data Analysis Quality Control, Read Mapping, Visualization and DNA Variant Analysis When? October 23-25, 2023, 9 am – 5 pm (CEST UTC+2) Where? Online Link?…

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LAST CALL: Online Course – A Practical Introduction to NGS Data Analysis

News:LAST CALL: Online Course – A Practical Introduction to NGS Data Analysis – October 23-25, 2023 1 Online Course – A Practical Introduction to NGS Data Analysis Quality Control, Read Mapping, Visualization and DNA Variant Analysis When? October 23-25, 2023, 9 am – 5 pm (CEST UTC+2) Where? Online Link?…

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Bioinformatics Scientist – II (Associate) – Cambridge

Innova Solutions is immediately hiring for a Bioinformatics Scientist – II Position type: Full time, Contract Job Title: Bioinformatics Scientist – II (Associate) Location: Cambridge or Boston Massachusetts Duration: 13+ months of contract Pay range: $72 to $77 per hour on W2 Job Description: The Data, AI & Genome Sciences…

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MWIDM hiring Bioinformatics Scientist in Boston, MA

ob Description: Qualifications: Education Minimum Requirement: Ph.D. in Bioinformatics, Biostatistics, Computational biology, Computer Science, Genetics, Immunology, Mathematics, Molecular Biology, Statistics, or related field -or- Masters’ degree in the above disciplines, with 3 years of relevant experience or B.S with 6+years of relevant experience. Required Experience and Skills: Passion to solve…

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Net2Source Inc. hiring Associate Bioinformatics Scientist in Cambridge, MA

JOB TITLE: Bioinformatics Scientist – II (Associate) LOCATION: Boston ( 33 Avenue Louis Pasteur, Boston, MA 02115, United States) Cambridge MA (320 Bent St, Cambridge, MA 02141, United States) DURATION: 12 months Note: we need someone experienced with analyzing and interpreting existing pipeline/Dataset (not building pipeline) which is a more…

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Bioinformatics Specialist (Pathology and Laboratory Medicine)

University Overview The University of Pennsylvania, the largest private employer in Philadelphia, is a world-renowned leader in education, research, and innovation. This historic, Ivy League school consistently ranks among the top 10 universities in the annual U.S. News & World Report survey. Penn has 12 highly-regarded schools that provide opportunities…

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Effects of a postbiotic SLFC non scalp microbiome

Introduction Sensitive scalp is a skin syndrome caused by the hyper-reactivity to environmental stimuli, which might cause inflammatory symptoms and abnormal sensory reactions of the scalp including pruritus, prickling, tightness, pain, and burning, but without visible signs of inflammation.1 Various circumstances, such as the atmospheric environment, heat, pollution, hair care…

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Clinical efficiency of mNGS in sputum for pathogen detection

Introduction Lower respiratory infections (LRIs) are the world’s most deadly communicable disease and ranks fourth as the primary cause of death globally according to the World Health Organization (WHO) 2019 report.1,2 LRIs include hospital-acquired pneumonia (HAP), community-acquired pneumonia (CAP), bronchiolitis, bronchitis, and tracheitis.3,4 Immunocompromised patients have a higher risk of…

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Bioinformatics Scientist – II (Associate)

Innova Solutions is immediately hiring for a Bioinformatics Scientist – II Position type: Full time, Contract Job Title: Bioinformatics Scientist – II (Associate) Location: Cambridge or Boston Massachusetts Duration: 13+ months of contract Pay range: $72 to $77 per hour on W2 Job Description: The Data, AI & Genome Sciences…

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On-Board Companies hiring Bioinformatics Scientist – II (Associate) in South San Francisco, California, United States

On-Board Scientific is hiring a Bioinformatics Scientist – II (Associate) in either Cambridge or Boston, MA!For immediate consideration please send your resume to resumes@onboardusa.comSubject Line: Position, Title, and State you are Located About Us:On-Board Services, Incorporated is an on-site contract service provider for a local manufacturing entity providing full time positions to…

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Astrix hiring Bioinformatics Scientist in Boston, Massachusetts, United States

LOCAL CANDIDATES ONLY. NO RELOCATION OR SPONSORSHIP AVAILABLE FOR THIS ROLE.***Pay: $65-77/hour Details: 1 Year ContractQualifications: Work location is either Boston or Cambridge MA,Education Minimum Requirement: Ph.D. in Bioinformatics, Biostatistics, Computational biology, Computer Science, Genetics, Immunology, Mathematics, Molecular Biology, Statistics, or related field Masters degree in the above disciplines, with…

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Bioinformatics Scientist – with Growth Opportunities at Spectraforce Technologies Inc in Cambridge, MA

We are eager to add an ambitious Bioinformatics Scientist to join our incredible team at Spectraforce Technologies Inc in Cambridge, MA.Growing your career as a Full Time Bioinformatics Scientist is an amazing opportunity to develop useful skills.If you are strong in analysis, creativity and have the right enthusiasm for the…

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SPECTRAFORCE hiring Bioinformatics Scientist in Cambridge, Massachusetts, United States

Title: Bioinformatics Scientist – IILocation: Either Boston or Cambridge MADuration: 12 Months Pay rate starts from $75/hr.Note: Work location is either Boston or Cambridge MA, however manager is based out in CA. Hybrid role(Requires to come 3 days/week onsite).Fixed 2 days: Either Monday and Thursday OR Tuesday and Wednesday. Friday’s…

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Transient naive reprogramming corrects hiPS cells functionally and epigenetically

Cell culture All cell lines used and derived by different approaches in this study are listed in Supplementary Table 1. Detailed information about the experimental design, materials and reagents is presented in the Reporting Summary. Primary human adult dermal fibroblasts (HDFa) from three different female donors were obtained from Gibco…

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2 last seats available – 7th Berlin Summer School in NGS Data Analysis (September 4-8 in Berlin)

News:2 last seats available – 7th Berlin Summer School in NGS Data Analysis (September 4-8 in Berlin) 4 7th Berlin Summer School in NGS Data Analysis When? September 4-8, 2023 Where? Berlin, Germany Link? Website The purpose of this intense one week summer course is to get a deep understanding…

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Evolutionary histories of breast cancer and related clones

Data reporting No statistical methods were used to determine the sample size. The experiments were not randomized. Pathologists were blinded to the genetic alterations in each sample during histopathological evaluation. Participants and materials We enroled 207 female patients with breast cancer who underwent surgery at the Kyoto University Hospital and…

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How to choose BWA-MEM2 settings

How to choose BWA-MEM2 settings 0 I am trying to run a BWA-MEM2 script to align DNA-seq data. But I am following this guide. How did they come up with the -t, -T, and -R information? On the manual, -t is threads, -T says “Don’t output alignment with score lower…

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error in Per sequence GC content of DNA-seq analysis

error in Per sequence GC content of DNA-seq analysis 0 hi everyone my question is about Per sequence GC content. i have an error in this section and my GC content is not usual. I want to ask you is it a kind of contamination or it has other reason?…

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Bioinformatics Scientist job with LabCorp

Bioinformatics Scientist will be responsible for assisting research and development team in a collaborative and multi-disciplinary effort in developing and validating OmniSeq’s molecular diagnostic and next generation sequencing based bioinformatics analysis pipelines, along with playing an important role in additional research related projects in the field of clinical oncology.Bioinformatics scientist…

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Bioinformatics Specialist (Pathology and Laboratory Medicine) job with University of Pennsylvania

Bioinformatics Specialist (Pathology and Laboratory Medicine) University Overview The University of Pennsylvania, the largest private employer in Philadelphia, is a world-renowned leader in education, research, and innovation. This historic, Ivy League school consistently ranks among the top 10 universities in the annual U.S. News & World Report survey. Penn has…

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Gene Expression

June 6th – 9th, 2022; 8:30am to 5:20pm, TH 1506 This four-day lecture / laboratory / computer laboratory course on the modern techniques to study genes and genomes with a major focus in gene expression analysis using next-generation (NG) sequencing approach is held yearly in the Throckmorton Plant Sciences Center….

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Bioinformatics Scientist job with John Wiley & Sons , Inc.

Bioinformatics Scientist will be responsible for assisting research and development team in a collaborative and multi-disciplinary effort in developing and validating OmniSeq’s molecular diagnostic and next generation sequencing based bioinformatics analysis pipelines, along with playing an important role in additional research related projects in the field of clinical oncology.Bioinformatics scientist…

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Sanskruti Solutions hiring Bioinformatics Engineer (2 – 5 Years Experienced) in Mumbai, Maharashtra, India

Position is with an esteemed client company of Sanskruti Solutions (Bio-IT Segment Company): Position: Bioinformatics Engineer No. of Positions: 01 Job Location: Powai (Mumbai) / Wakad (Pune) Job Summary: We are seeking a highly motivated and skilled Bioinformatics Engineer to join our team. The successful candidate will have strong programming skills in either Python…

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Bioinformatics Scientist job with Labcorp Diagnostics, Labcorp

Bioinformatics Scientist will be responsible for assisting research and development team in a collaborative and multi-disciplinary effort in developing and validating OmniSeq’s molecular diagnostic and next generation sequencing based bioinformatics analysis pipelines, along with playing an important role in additional research related projects in the field of clinical oncology. Bioinformatics…

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University of Pennsylvania hiring Bioinformatics Specialist (Pathology and Laboratory Medicine) in Philadelphia, Pennsylvania, United States

University OverviewThe University of Pennsylvania, the largest private employer in Philadelphia, is a world-renowned leader in education, research, and innovation. This historic, Ivy League school consistently ranks among the top 10 universities in the annual U.S. News & World Report survey. Penn has 12 highly-regarded schools that provide opportunities for…

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Epigenetic dysregulation from chromosomal transit in micronuclei

Cell culture Cell lines (MDA-MB-231, 4T1 and RPE-1) were purchased from the American Type Culture Collection (ATCC). TP53-knockout MCF10A, TP53-knockout RPE-1 and Trex1 knockout 4T1 cells were gifts from the Maciejowski laboratory at the Memorial Sloan Kettering Cancer Center (MSKCC). OVCAR-3 cells were a gift from J. D. Gonzales. All…

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Bioconductor – trackViewer

DOI: 10.18129/B9.bioc.trackViewer   This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see trackViewer. A R/Bioconductor package with web interface for drawing elegant interactive tracks or lollipop plot to facilitate integrated analysis of multi-omics data Bioconductor version: 3.16 Visualize mapped reads along with annotation as…

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Sanskruti Solutions hiring Bioinformatics Software Developer in Mumbai, Maharashtra, India

Opportunity with an esteemed client company of Sanskruti Solutions (Bio-IT Firm): Position: Bioinformatics Software Developer No. of Positions: 01 Job Location: Wakad (Pune) / Powai (Mumbai) Open For: Both Male / Female Candidates possessing requisite skills and experience as desired by us. Job Summary: We are seeking a highly motivated and skilled Bioinformatics Software…

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Exploring Miniaturization and Automation of Next-Generation Sequencing (NGS) Library Preparation Workflows

Produced in Partnership with SPT LabtechMay 30 2023Reviewed by Aimee Molineux Next-generation sequencing (NGS) has transformed the medical and biological sciences, delivering enhanced throughput and improved affordability. The fundamentals of NGS library preparation remain mostly unchanged, despite a substantial drop in the time required (now taking less than half a…

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Bioinformatics Analyst Job Opening in Providence, RI at Lifespan

View the Job Description of Bioinformatics Analyst Summary: Under the general supervisionof the Bioinformatics Scientist Department Manager Laboratory Directors andPathologists and in accordance with established policies and procedures theBioinformatics Analyst performs independently in the Department of Pathology. TheBioinformatics Analyst will be responsible for analyzing clinical NextGeneration Sequencing data contributing to…

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Senior Data Scientist for Cancer Pharmacogenomics job with Human Technopole

APPLICATION CLOSING DATE: July 3rd, 2023 Human Technopole (HT) is a new interdisciplinary life science research institute, created and supported by the Italian Government, with the aim of developing innovative strategies to improve human health. HT is composed of five Centers: Computational Biology, Structural Biology, Genomics, Neurogenomics and Health Data Science….

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Associate Data Scientist – Genetics (NGS) job with University of Texas MD Anderson Cancer Center

SUMMARY The Genetics Department is a basic science department located in the George and Cynthia Mitchell Basic Sciences Research Building at the world-renowned University of Texas MD Anderson Cancer Center in the heart of the Texas Medical Center. The focus is on advancing knowledge of the molecular genetic mechanisms that…

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Job Opportunity: Bioinformatics Scientist, Labcorp | BRET Career Development ASPIRE Program

Posted by hagansa2 on Wednesday, May 17, 2023 in Job Opportunities . Bioinformatics Scientist will be responsible for assisting research and development team in a collaborative and multi-disciplinary effort in developing and validating OmniSeq’s molecular diagnostic and next generation sequencing based bioinformatics analysis pipelines, along with playing an important role…

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Integrated microbiome-metabolome-genome axis data of Laiwu and Lulai pigs

Animal rearing and samples collection Our experiment was designed to compare eight female Laiwu pigs (LW) with eight female Lulai pigs (LU) which crossbred between LW and Yorkshire breeds. All pigs were born and raised for approximately two years (715 ± 33 days, Table 1) under uniform housing and feeding conditions at Jing-Qi-Shen…

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Tinybio Slackbot – a large language model slackbot for bioinformatics

How is it different from typing the same into ChatGPT? And it does not take 2-3 minutes … Can you give me two variant callers? Sure, variant callers are bioinformatics software tools used to identify variants (like SNPs and indels) from sequence data. Here are two commonly used variant callers:…

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WES variant calling with DNBSEQ-T7

WES variant calling with DNBSEQ-T7 – technical quality assessment 0 Hi everyone! I recently received whole exome sequencing samples that were sequenced on an MGI sequencing instrument, DNBSEQ-T7. I am interested in somatic variant-calling on the paired tumor-normal samples. As this isn’t the canonical Illumina sequencer, an issue that I…

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7th Berlin Summer School in NGS Data Analysis (September 4-8 in Berlin)

News:7th Berlin Summer School in NGS Data Analysis (September 4-8 in Berlin) 0 7th Berlin Summer School in NGS Data Analysis When? September 4-8, 2023 Where? Berlin, Germany Link? Website The purpose of this intense one week summer course is to get a deep understanding in Next-Generation Sequencing (NGS) with…

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Mechanism of radix astragali therapy against hyperuricemia

Introduction Hyperuricemia is a disease caused by irregular purine metabolism, which is always accompanied by excessive production or abnormal excretion of uric acid (UA).1 Most notably, the overall incidence of hyperuricemia in China has been increasing over the past decade with the westernization of eating habits.2,3 However, there are blind…

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Applications of single-cell RNA sequencing in drug discovery and development

DiMasi, J. A., Grabowski, H. G. & Hansen, R. W. Innovation in the pharmaceutical industry: new estimates of R&D costs. J. Health Econ. 47, 20–33 (2016). Article  PubMed  Google Scholar  Wouters, O. J., McKee, M. & Luyten, J. Estimated research and development investment needed to bring a new medicine to…

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Download the promoter, enchancer, TSS , 3 prime, exon and intron positions of all hg38 genes

Download the promoter, enchancer, TSS , 3 prime, exon and intron positions of all hg38 genes 1 Hi All, I would like to download the promoter enhancer, exon, intron, 3’prime, 5’prime positions of all genes from the human genome hg38 version. I have seen a couple of information in the…

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Integrated transcriptome catalog of Tenualosa ilisha as a resource for gene discovery and expression profiling

Ahsan, D. A., Naser, M. N., Bhaumik, U., Hazra, S. & Bhattacharya, S. B. Migration, Spawning Patterns and Conservation of Hilsa Shad (Tenualosa ilisha) in Bangladesh and India. Publ. by Acad. Found. India, New Delhi Int. Union Conserv. Nat. Nat. Resour. 95 (2014). De, D. et al. Nutritional profiling of…

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Bioinformatics Scientist – TriLab Bioinformatics Core, NIDDK-NIH

Bioinformatician position available at NIH (Bethesda, MD) We seek a bioinformatician/data scientist with a strong record of collaborative interactions with biologists. The successful candidate must have a M.S or Ph.D. degree in bioinformatics, computational biology, computer science, or a related field and have the ability to work independently or as…

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Postdoctoral researcher in Bioinformatics: Computational analysis of cancer multiomics data

We are looking for an enthusiastic Postdoctoral researcher who is eager to work on the computational reconstruction of dynamic blood-cancer interactomes from longitudinal multiomics data. Organization: University of Innsbruck Country: Austria Department(s): Institute of Molecular Biology and Digital Science Center (DiSC) Research Field: Bioinformatics Researcher Profile: Postdoctoral researcher Type of…

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A Practical Introduction (May 3-5, 2023 in Munich, Germany)

News:Next-Generation Sequencing Data Analysis: A Practical Introduction (May 3-5, 2023 in Munich, Germany) 0 📣Attention all biologists! 🧬 Are you interested in expanding your knowledge in Next-Generation Sequencing (NGS) and bioinformatics? 🧐 Look no further! We are excited to announce our upcoming hands-on workshop on NGS Data Analysis from May…

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Bioinformatics Scientist position in Cambridge, Massachusetts

Onsite role   Scientific Associate – Bioinformatics   We are seeking a highly motivated bioinformatics scientist to perform quality control and analysis of next-generation sequencing data (e.g., RNA-sequencing and cell-free DNA-sequencing) from clinical trial samples. The successful candidate will work collaboratively with computational biologists, drive quality control of sequencing data,…

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Bad quality fastq files for analysis

Bad quality fastq files for analysis 0 I am working on a project that requires me to identify multiple fastq files with low quality. What can be a possible starting point for this sort of data search? quality bad DNA-seq fastq alignment • 113 views Login before adding your answer….

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| EasyBiologyClass

Bioinformatics is an interdisciplinary field that analyzes and interprets biological data by combining biology, computer science, and statistics. There are various tools and techniques available for data analysis and interpretation. The software tools used in bioinformatics range from simple command-line utilities to more complex graphical programs and standalone web-services made…

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Research Fellow, The Bioinformatics Platform job with NATIONAL UNIVERSITY OF SINGAPORE

Job Description The Bioinformatics Platform at the Immunology Translational Research Program NUS,  utilizes state-of-the-art methods in pipelines and workflow to analyze data to gain biological insights. The platform works with a number of medium to high throughput technologies like microbiome metagenomics, single-cell omics, next generation sequencing (RNA-seq, DNA-seq, etc), Luminex…

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QUAST Genome Assembly Quality Assessment

Genetic Variation studies often involve analyzing samples from a previously studied species. For instance, it is of interest to examine genomes of various cultivars, strains, or populations of the same species. In such cases, it may be necessary to perform de novo DNA-Seq assembly to obtain the genome of the…

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NUSMED Immunology TRP hiring Bioinformatics Analyst in Singapore, Singapore

The Bioinformatics Platform at the Immunology Translational Research Program NUS, utilizes state-of-the-art methods in pipelines and workflow to analyze data to gain biological insights. The platform works with a number of medium to high throughput technologies like microbiome metagenomics, single-cell omics, next generation sequencing (RNA-seq, DNA-seq, etc), Luminex multiplex assays, Microarrays,…

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Sanskruti Solutions hiring Bioinformatician (Strong Coding Skills in Python / R) in Mumbai, Maharashtra, India

Opportunity with an esteemed client company of Sanskruti Solutions: Position: Bioinformatician Job Location: Wakad (Pune) / Powai (Mumbai) Open For: Both Male / Female Candidates possessing requisite skills and experience as desired by us. Job Summary: We are seeking a highly motivated and skilled Bioinformatician to join our team. The successful candidate will have…

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Bioinformatics Scientist at Dana-Farber Cancer Institute in 20 Overland Street, Boston, MA

We are looking for an intelligent, hard-working, and dynamic individual to join Bioinformatics and Molecular Data group, a subdivision of the Dana-Farber Cancer Institute (DFCI) Informatics and Analytics Department. The group encompasses expertise in bioinformatics, machine learning, and computational biology and works with some of the most prominent research and…

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Remote Principal Bioinformatics Engineer Job at Form Bio

Principal Bioinformatics Engineer Form Bio is working with Colossal Biosciences to build the future of genome engineering, and that requires new tools, and we’re looking for someone who is interested in breaking ground on projects across our species teams. The Principal Bioinformatics Engineer needs to have strong programming skills, a…

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RNA Editing data from RNA-seq

RNA Editing data from RNA-seq 1 Does anyone help me to generate RNA editing data from raw RNA-seq data of FUNGALmodel system which has reference genome at JGI? Also would like to explain the protocol of RNA editing. NOTE Most of the RNA editing tool I found is for human…

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Phenotypic plasticity and genetic control in colorectal cancer evolution

Sample preparation and sequencing The method of sample collection and processing is described in a companion article (ref. 23). Sequencing and basic bioinformatic processing of DNA-, RNA- and ATAC-seq data are included there as well. Gene expression normalization and filtering The number of non-ribosomal protein-coding genes on the 23 canonical chromosome pairs…

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Inferring and perturbing cell fate regulomes in human brain organoids

Experimental methods Stem cell and organoid culture We used six human iPS cell lines (Hoik1, Wibj2, Kucg2 from the HipSci resource47; 409B2 from the RIKEN BRC cell bank; 01F49i-N-B7 (B7) from Institute of Molecular and Clinical Ophthalmology Basel; and WTC from the Allen Institute) and three human ES cell lines (H1-PAX6YFP…

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Dean’s Research Fellowship, Bioinformatics, Systems Immunology and Metabolism job with UNIVERSITY OF SURREY

Biochemical Sciences Location: Guildford Salary: £42,149 to £48,836 per annum Fixed Term for 4 years Post Type: Full Time Closing Date: 23.59 hours BST on Sunday 31 July 2022 Reference: 072121-R-R-R We are excited to invite applications for a four-year Dean’s Research Fellowship in the School of Biosciences (Faculty of Health and Medical Sciences)…

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Allelic expression imbalance of PIK3CA mutations is frequent in breast cancer and prognostically significant

Subjects Normal breast and tumor samples were obtained with the written informed consent from donors and appropriate approval from local ethical committees, with the detailed information described in the respective original publications: normal tissue9, METABRIC14, TCGA35. Differential allelic expression analysis DNA and total RNA from 64 samples of normal breast…

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RPKM, how to normalize for library size

RPKM, how to normalize for library size 1 Hi everybody! I’m working on several metagenomes (so not trascriptomes), and I mapped high quality reads to a database made of nucleotide sequences through bowtie2. I want to convert raw mapping counts of each gene in RPKM. I know this method might…

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Bioinformatics Scientist in Boston, MA for Dana-Farber Cancer Institute

Details Posted: 27-Apr-22 Location: Boston, Massachusetts Salary: Open Internal Number: 2022-26921 Located in Boston and the surrounding communities, Dana-Farber Cancer Institute is a leader in life changing breakthroughs in cancer research and patient care. We are united in our mission of conquering cancer, HIV/AIDS and related diseases. We strive to…

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Bioinformatics Specialist (Pathology and Laboratory Medicine) at University of Pennsylvania in Philadelphia, Pennsylvania

Job Description: Bioinformatics Specialist (Pathology and Laboratory Medicine) University Overview The University of Pennsylvania, the largest private employer in Philadelphia, is a world-renowned leader in education, research, and innovation. This historic, Ivy League school consistently ranks among the top 10 universities in the annual U.S. News & World Report survey….

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BTG2 gene predicts poor outcome in PT-DLBCL

Introduction Primary testicular diffuse large B-cell lymphoma (PT-DLBCL) is a rare and aggressive form of mature B-cell lymphoma.1–3 PT-DLBCL was the most common type of testicular tumor in men aged over 60 and characterized by painless uni- or bilateral testicular masses with infrequent constitutional symptoms.4–6 PT-DLBCL shows significant extranodal tropism,…

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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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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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Bioinformatics postdoctoral position

Bioinformatics postdoctoral position There is an immediate opening for a bioinformatics postdoctoral position in Tahlan Laboratory at the Department of Biology (www.mun.ca/faculty/ktahlan/index.php) to study the epidemiology and evolution of mycobacterial pathogenesis using whole genome sequencing (WGS, Illumina) data. Responsibilities: Bioinformatics analysis of WGS DNA-seq data. Writing results for publication. Qualifications:…

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Strange speed up in GATK LeftAlignIndels

Strange speed up in GATK LeftAlignIndels 1 Hi! I noticed a strange thing, I have been running a DNA-seq pipeline like this: reads -> bwa-mem2 -> picard SortSam -> picard MergeSamFiles -> picard MarkDuplicates -> gatk LeftAlignIndels … gatk LeftAlignIndels has always taken around 4 hours to complete with the…

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Single-cell DNA and RNA sequencing reveals the dynamics of intra-tumor heterogeneity in a colorectal cancer model | BMC Biology

Organoid culture of small intestinal cells and lentiviral transduction C57BL/6J mice and BALB/cAnu/nu immune-deficient nude mice were purchased from CLEA Japan (Tokyo, Japan). The small intestine was harvested from wild-type male C57BL/6J mice at 3–5 weeks of age (Additional file 1: Figure S9A). Crypts were purified and dissociated into single cells,…

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iCOMIC: a graphical interface-driven bioinformatics pipeline for analyzing cancer omics data

Abstract Despite the tremendous increase in omics data generated by modern sequencing technologies, their analysis can be tricky and often requires substantial expertise in bioinformatics. To address this concern, we have developed a user-friendly pipeline to analyze (cancer) genomic data that takes in raw sequencing data (FASTQ format) as input…

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Clinical Bioinformatics Scientist/Engineer Job in Massachusetts (MA), Career, Full Time Jobs in Novartis Pharmaceuticals

6500 – The number of associates in the Novartis Institutes for BioMedical Research (NIBR). This division is the innovation engine of Novartis, focusing on powerful new technologies that have the potential to help produce therapeutic breakthroughs for patients. We are seeking a bioinformatics scientist to coordinate the processing and…

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Nucleic Acids Research Papers on RIMS-seq, MMBIR in Cancer, Induced Pluripotent Cell Transposable Elements

Researchers in the US and France report on a “rapid identification of methylase specificity” sequencing (RIMS-seq) approach for characterizing 5-methylcytosine methylation-related methylase enzyme specificity in concert with DNA sequencing in bacterial genomes. After validating the sequencing strategy, the team used RIMS-seq to assess synthetic and real gut microbial communities or…

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