Tag: NIH

Bioinformatics Analyst II Job in Maryland (MD), Research and Development Career, Full Time Jobs in Frederick National Laboratory for Cancer Research

Bioinformatics Analyst II Job ID: req3154Employee Type: exempt full-timeDivision: Applied & Development Research ProgramFacility: Frederick: Ft DetrickLocation: PO Box B, Frederick, MD 21702 USA The Frederick National Laboratory is a Federally Funded Research and Development Center (FFRDC) sponsored by the National Cancer Institute (NCI) and operated by Leidos Biomedical…

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IMUNON, INC. MANAGEMENT’S DISCUSSION AND ANALYSIS OF FINANCIAL CONDITION AND RESULTS OF OPERATIONS. (form 10-Q)

The following discussion and analysis of our financial condition and results of operations This discussion contains forward-looking statements that involve risks and uncertainties. Our actual results may differ materially from those discussed in forward-looking statements. Factors that might cause a difference include, but are not limited to, those discussed above…

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Researchers develop new machete technique to slice into cancer genome and study copy number alterations — ScienceDaily

MACHETE is a new CRISPR-based technique developed by researchers at the Sloan Kettering Institute (SKI) to study large-scale genetic deletions efficiently in laboratory models. People are already calling it the Machete Paper. Still, lead authors Francisco “Pancho” Barriga and Kaloyan Tsanov of the Sloan Kettering Institute don’t want the name…

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Global Metagenomics Summit: Metagenomics and Metadesign of Urban Biomes (MetaSUB) Conference

About this Event Fontainebleau Miami Beach This conference will cover a diverse range of metagenomics topics, including environmental pathogen surveillance and related predictive models of disease prevalence.  Keynote talks will feature leaders in the fields of metagenomics and global health.  Topics will include: (1) global updates on metagenomic mapping of…

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cell Large Granular Lymphocytic Leukemia

Large granular lymphocyte leukemia (LGLL) is a rare chronic lymphoproliferative disorder originating in the mature T-cells and natural killer (NK) cells, accounting for 2% to 5% of all the chronic lymphoproliferative disorders in North America and Europe. T-cell LGLL (T-LGLL) is the most common subtype representing about 85% of LGLL…

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Nociceptor neurons affect cancer immunosurveillance

Secondary use of biopsies as research specimens The ten melanoma samples used in this study were collected by Sanford Health and classified by a board-certified pathologist. Their secondary use as research specimens (fully de-identified formalin-fixed, paraffin-embedded (FFPE) blocks) was approved under Sanford Health IRB protocol 640 (titled ‘Understanding and improving…

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Genome-wide identification of disease-causing copy number variations in 450 individuals with anorectal malformations

CNV analysis After the application of quality filter step I (gender mismatch), two patients were excluded. Through step II (call rate <98%), 40 patients were discarded and after step III (exceeded double of standard deviation), 12 more patients were excluded. In the remaining 396 individuals with ARM, a total of…

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Breadth of SARS-CoV-2 neutralization and protection induced by a nanoparticle vaccine

Animals and immunizations The study protocol and all veterinarian procedures were approved by the Bioqual IACUC per a memorandum of understanding with the Duke IACUC, and were performed based on standard operating procedures. Macaques studied were housed and maintained in an Association for Assessment and Accreditation of Laboratory Animal Care-accredited…

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advantages of electroporation

Therapeutic mRNAs can be stabilized by the incorporation of modified nucleosides, synthetic capping, and the addition of lengthy poly-A tails, and can be enhanced with codon optimization (1113). Maintains viability . Plant tissue culture is a collection of techniques used to maintain or grow plant cells, tissues or organs under…

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MSPCD: predicting circRNA-disease associations via integrating multi-source data and hierarchical neural network | BMC Bioinformatics

Problem description Limited by time and cost, exploring the correlations between circRNAs and human diseases based on biological experiments has encountered many difficulties and bottlenecks. Instead of traditional experiments, computational methods are proved to be an efficient and accurate way to discover the potential connections between circRNAs and diseases. Data…

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NCBI/blast349 – WWW Error 404 Diagnostic

NCBI/blast349 – WWW Error 404 Diagnostic The page you requested ( h t t p : / / b l a s t . n c b i . n l m . n i h . g o v / b l a s t / B l a…

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Number of sequences in RefSeq.

Number of sequences in RefSeq. 2 Dear colleagues I can not understand. When I download all the genomic sequences from the refseq database, after counting, I see that there are much fewer records than presented in the release (123394 organisms ftp.ncbi.nlm.nih.gov/refseq/release/release-notes/RefSeq-release214.txt). What am I doing wrong? 1. wget ftp.ncbi.nlm.nih.gov/genomes/refseq/assembly_summary_refseq.txt 2….

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Duke University, Biostatistics & Bioinformatics

Postdoctoral Research Fellow in Biostatistics and Bioinformatics Established in 1930, Duke University School of Medicine is the youngest of the nation’s top medical schools. Ranked tenth among its peers, the School takes pride in being an inclusive community of outstanding learners, investigators, clinicians, and staff where traditional barriers are…

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A global collaboration to map the whole human brain

Baylor College of Medicine researchers in the Tolias Lab and the Xiaolong Jiang Lab are part of a global collaborative led by the Allen Institute to map the whole human brain. In what is being called the brain equivalent of the Human Genome Project, this initiative will map 200 billion cells in the human brain by…

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RefSeq release 214 is available! – NCBI Insights

RefSeq release 214 is now available online, from the FTP site, and through NCBI’s Entrez programming utilities, E-utilities. This full release incorporates genomic, transcript, and protein data available as of September 12, 2022, and contains 328,588,569 records, including 239,609,016 proteins, 47,387,931 RNAs, and sequences from 123,394 organisms. The release is provided in…

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Bioconductor – SNPlocs.Hsapiens.dbSNP155.GRCh37 (development version)

DOI: 10.18129/B9.bioc.SNPlocs.Hsapiens.dbSNP155.GRCh37     This is the development version of SNPlocs.Hsapiens.dbSNP155.GRCh37; to use it, please install the devel version of Bioconductor. Human SNP locations and alleles extracted from dbSNP Build 155 and placed on the GRCh37/hg19 assembly Bioconductor version: Development (3.16) The 929,496,192 SNPs in this package were extracted from…

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Nasal Covid Vaccines To Be A Game-changer: Scientists

Share Tweet Share Share Email In mice, a prospective COVID-19 vaccination that is administered by the nose shows promise. One day you might only need to scent to protect yourself from COVID-19. Professors of radiology Ramasamy Paulmurugan and Tarik Massoud are leading an…

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Metagenomic Next-Generation Sequencing in the Diagnosis of Infectious

Introduction Infection due to myelosuppression after chemotherapy for malignancies is a common complication and cause of treatment-related death.1,2 In clinical practice, the traditional identification of pathogens relies heavily on laboratory capacity to detect common pathogenic microorganisms with discrete methods, such as assays for pathogen-specific antibodies, nucleic acids and antigens, and…

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Duke autism center lands $12M grant to develop artificial intelligence tools

DURHAM  – The Duke Center for Autism and Brain Development has been awarded a $12 million federal grant to develop artificial intelligence tools for detecting autism during infancy and identifying brain-based biomarkers of autism. The grant, from the National Institute of Child Health and Human Development, extends the Duke Autism…

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Bioinformatics Analysis of the Key Genes and Pathways in Multiple Myel

Introduction Multiple myeloma is a B-cell malignancy characterized by the malignant proliferation of clonal plasma cells in bone marrow,1 It is the second most common hematological malignancy after lymphoma.2 The age-standardised rate (ASR) of multiple myeloma incidence was 1·78 (95% UI 1·69-1·87) per 100 000 people globally and mortality was…

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Is Pulmonary Arterial Hypertension Risk Assessment Solved By Cell-Free DNA?

Share Tweet Share Share Email According to the recent milestone development of the National Institute of Health in California, a new blood test has been identified. The purpose of the test is to assess the gravity of the disease in patients with pulmonary…

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Ncbi Wgs Portal

Login page for ncbi wgs portal is presented below. Log into ncbi wgs portal page with one-click or find related helpful links. Last Updated: 17th August, 2022 WGS – NCBI – NIH   www.ncbi.nlm.nih.gov/genbank/wgs Nov 13, 2017 – Whole Genome Shotgun (WGS) projects are genome assemblies of incomplete genomes or…

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CLINICAL CHARACTERISTICS AND PROGNOSTIC FACTORS IN PRIMARY BREAST DIFFUSE LARGE B-CELL LYMPHOMA

Keywords Diffuse large B-cell lymphoma, Breast, Prognostic factors, Relapse, Central nervous system References [1] C. Wiseman, and K.T. Liao, Primary lymphoma of the breast. Cancer 29 (1972) 1705-12.www.ncbi.nlm.nih.gov/pubmed/4555557 [2] P.J. Hosein, J.C. Maragulia, M.P. Salzberg, O.W. Press, T.M. Habermann, J.M. Vose, M. Bast, R.H. Advani, R. Tibshirani, A.M. Evens, N….

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iPSCs derived from infertile men carrying complex genetic abnormalities can generate primordial germ-like cells

Patients and controls The patient 1 was 38 years old and consulted for infertility after he and his partner had been trying to conceive for 2 years. The patient was the first child of unrelated parents, and he had four brothers and five sisters whose fertility status could not be determined…

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New annotations in RefSeq – NCBI Insights

In June and July, the NCBI Eukaryotic Genome Annotation Pipeline released twenty-six new annotations in RefSeq for the following organisms: Anopheles coluzzii (mosquito) Anopheles funestus (African malaria mosquito) Astyanax mexicanus (Mexican tetra) Athalia rosae (coleseed sawfly) Bactrocera dorsalis (oriental fruit fly) Brassica napus (rape) Brienomyrus brachyistius (bony fish) Canis lupus dingo (dingo) (pictured) Caretta…

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What is the function of this gene product in methylation?

This gene product helps to shift the emphasis of the methylation cycle toward the building blocks needed for new DNA synthesis, and away from the processing of homocysteine to methionine. [7] Also to know is, What is the role of non-CpG methylation? Because of its recent discovery, the role of…

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iPSCs – Pharmacology Group Discussion

iPSCs – Pharmacology Group Discussion – HackMD       Published Linked with GitHub # iPSCs – Pharmacology Group Discussion ## Neurology ### Reviews * [パーキンソン病に対する多能性幹細胞を用いた細胞移植治療の現状](https://doi.org/10.5692/clinicalneurol.cn-001235) * pdf * www.jstage.jst.go.jp/article/clinicalneurol/59/3/59_cn-001235/_article/-char/ja/ * doi * doi.org/10.5692/clinicalneurol.cn-001235 ### Trials * [Safety of the tau-directed monoclonal antibody BIIB092 in progressive supranuclear palsy: a randomised,…

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Job Application for C++ Software Developer in Bioinformatics and Big Data at NIH-NCBI

Overview Black Canyon Consulting (BCC) in partnership with Medical Science and Computing (MSC) is searching for a C++ Software Developer in Bioinformatics and Big Data to support the National Center for Biotechnology Information (NCBI).  This opportunity is full time and onsite at the NCBI in Bethesda, MD and/or remote work. NCBI,…

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Postdoctoral Research Fellow /Associate – Epigenomics/Bioinformatics in Cincinnati, OH for Cincinnati Children’s Hospital Medical Center

Details Posted: 11-Aug-22 Location: Cincinnati, Ohio Salary: Open Categories: Academic / Research Description Computational postdoctoral positions in bioinformatics and epigenomics (computational/experimental) are available at Dr.Yaping Liu’s lab in the Division of Human Genetics. One of the research directions in Dr. Liu’s group is to study single-cell multi-omics data to understand…

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SDSC’s Lead for Bioinformatics Receives Award from NIH/NICHD

Aug. 12, 2022 — Peter Rose, director of the Structural Bioinformatics Laboratory at the San Diego Supercomputer Center at UC San Diego, was recently presented with a team award from the National Institutes of Child Health and Human Development (NICHD)–noting his work in the COVID-19 Common Data Elements Working Groups….

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Bronchoalveolar Lavage Fluid for Metagenomic Sequencing

Introduction Severe pneumonia is one of the most common causes of infectious diseases among patients in the intensive care unit (ICU), and this can lead to various complications and high mortality.1–3 Timely and accurate pathogen diagnoses are crucial for appropriate antimicrobial therapy and improved clinical outcomes. However, the low detection…

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Bioinformatics Scientist Job In Dovel Technologies, LLC At

Overview: We are currently searching for a Bioinformatics Scientist to provide support to the National Institutes of Health (NIH). This opportunity is a full-time position with MSC, and it is on-site in Gaithersburg, MD. Duties & Responsibilities: Work independently and collaboratively to develop or optimize procedures that improve the throughput…

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Targeted inhibition of ubiquitin signaling reverses metabolic reprogramming and suppresses glioblastoma growth

Cell culture Human glioblastoma cells (U87MG and U87MG-Luc) and human embryonic kidney cells (HEK293) were obtained from the American Type Culture Collection (Manassas, Va.). Cells were cultured in Dulbecco’s Modified Eagle Medium supplemented with 10% fetal bovine serum (Gibco™ Fetal Bovine Serum South America, Thermo Scientific Fisher-US), 2 mM l-glutamine, 50 U/ml…

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Genomic architecture of adaptive radiation and hybridization in Alpine whitefish

Sampling the radiation To understand the phylogenetic relationships between Alpine whitefish, we carried out whole-genome resequencing on 96 previously collected whitefish (with associated phenotypic measurements including standard length and gill-raker counts; collected in accordance with permits issued by the cantons of Zurich (ZH128/15), Bern (BE68/15), and Lucerne (LU04/14); these fish…

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Scientists receive $3.9 million NIH grant to eradicate HIV from the brain

Finding a cure for HIV has been extremely difficult, in part because the virus hides from antiretroviral treatments in one of the hardest places to reach: the brain. Scientists at Texas Biomedical Research Institute (Texas Biomed) and Temple University in Philadelphia recently received a $3.9 million grant from National Institutes…

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Hydrogen Sulfide Ameliorated High Choline-Induced Cardiac Dysfunction by Inhibiting cGAS-STING-NLRP3 Inflammasome Pathway

Although it is an essential nutrient, high choline intake directly or indirectly via its metabolite is associated with increased risk of cardiovascular disease, the mechanism of which remains to be elucidated. The present study was performed to investigate whether hydrogen sulfide (H2S) was involved in high choline-induced cardiac dysfunction and…

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Oncotarget | Predicting cancer immunotherapy

image: Figure 2: Comparisons of gut microbiome between responders and non-responders from the combined dataset. view more  Credit: Liang et. al. “Findings demonstrate how machine learning models can reveal microbiome-immunotherapy interactions that may ultimately improve cancer patient outcomes.”  BUFFALO, NY- July 19, 2022 – A new research paper was published in…

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C698R mutation in Lrsam1 gene impairs nerve regeneration in a CMT2P mouse model

Animal generation The Lrsam1C698R knock-in mice were generated on a C57Bl/6J background using the CRISPR/Cas9 technique. Briefly, single-cell zygotes from C57BL/6J mice were microinjected with mRNA encoding Cas9 and a guide sequence (5′-ACAGCAGCAGACGTGGCCAC-3′ at 20 ng/µl) to target the exon 26 of Lrsam1. A single stranded DNA oligo carrying the C698R mutation…

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Postdoctoral Position in Statistical Genetics / Bioinformatics / Epigenetics job with National Institute on Aging (NIA) / National Institute of Health (NIH)

Postdoctoral Position in Statistical Genetics/Bioinformatics/Epigenetics   Health Disparities Research Section of the Laboratory of Epidemiology and Population Science National Institute on Aging (NIA) National Institute of Health (NIH)   A fully funded postdoctoral position is available immediately in the Health Disparities Research Section of the Laboratory of Epidemiology and Population…

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Front-Runners in the Race for Variant-Proof and All-Coronavirus Vaccines

SARS-CoV-2 – the coronavirus that causes Covid – is the third from its virus family to cause devastating pandemics or outbreaks in the last 20 years. First, there was the original SARS in 2002, and then MERS in 2012. As Fauci and others stress, even worse coronaviruses could spill over…

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Research opens the door to improved treatments for congenital heart disease

Researchers at Baylor College of Medicine, Texas Heart Institute, Texas Children’s Hospital and collaborating institutions have improved our understanding of the mechanisms underlying the progression of congenital heart disease (CHD) – a spectrum of heart defects that develop before birth and remain one of the leading causes of childhood death….

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Research Faculty- Department of Biostatistics and Bioinformatics in UNAVAILABLE, for Emory Healthcare

Details Posted: 24-Jun-22 Location: UNAVAILABLE, Salary: Open Categories: Physicians/Surgeons Discover Your Career at Emory University Emory University is a leading research university that fosters excellence and attracts world-class talent to innovate today and prepare leaders for the future. We welcome candidates who can contribute to the diversity and excellence of…

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Tramadol Therapy and CYP2D6 Genotype – Medical Genetics Summaries

Introduction Tramadol (brand names ConZip, Ultram, UltramER, Odolo) is an analgesic used to treat moderate to severe pain. It is used for a variety of pain conditions, including post-operative pain, cancer pain, and musculoskeletal pain. Tramadol is a centrally acting opioid analgesic with mu-opioid binding activity as well as weak…

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Genome-wide association study of musical beat synchronization demonstrates high polygenicity

Savage, P. E., Brown, S., Sakai, E. & Currie, T. E. Statistical universals reveal the structures and functions of human music. Proc. Natl Acad. Sci. USA 112, 8987–8992 (2015). CAS  PubMed  PubMed Central  Article  Google Scholar  Ravignani, A., Delgado, T. & Kirby, S. Musical evolution in the lab exhibits rhythmic…

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How To Download Geo Data? Update New

Bioinformatics 101 | How to download RNA-Seq data from NCBI GEO | Bioinformatics for beginners Bioinformatics 101 | How to download RNA-Seq data from NCBI GEO | Bioinformatics for beginners Images related to the topicBioinformatics 101 | How to download RNA-Seq data from NCBI GEO | Bioinformatics for beginners Bioinformatics…

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parallel downloads from SRA with SRA toolkit or other ways to speed up downloads

parallel downloads from SRA with SRA toolkit or other ways to speed up downloads 0 Is there a way to parallelize downloads from NCBI using SRAToolkit on a HPC cluster? I tried using GNU parallel but I can not actually tell if the downloads are doing anything: cat < /home/ptellier/scratch/phillip/data/escc_data/SRA_accessions.txt…

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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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Metagenomics – RPKM calculation

Normalization for comparing gene coverage values. RPKM corrects differences in both: sample sequencing depth and gene length. RPKM – Reads per kilo base per million mapped reads Formula RPKM = numReads / ( geneLength/1000 * totalNumReads/1,000,000 ) numReads – number of reads mapped to a gene sequence geneLength – length…

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a strange pattern of repetitive summits

Problem with the output of Deeptools PlotProfile: a strange pattern of repetitive summits 0 Hi! I am trying to plot DNA binding profiles of my ChIP-seq bw files using Deeptools plotProfile. I generated the matrix using the computeMatrix reference-point. I used some publicly available bed files as my regions of…

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Osteosarcoma Combination of Electroporation of Metabolic Modulators with Low dose chemotherapy

Osteosarcoma – Combination of Electroporation of Metabolic Modulators with Low dose chemotherapy Dr Kesh Gill Bone cancer particularly osteosarcoma can be an aggressive disease. Despite tremendous advances in diagnostic modalities, surgical procedures, and chemotherapy options, osteosarcoma confers a generally poor prognosis. The absence of an effective immune response to most…

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Deseq2 Multifactor Design – Design Forum

Deseq2 multifactor design – In fact, deseq2 can analyze any possible experimental design that can be expressed with fixed effects terms (multiple factors, designs with interactions, designs with continuous variables, splines, and so on are all possible). We have searched different posts in different forums and i can’t figure out…

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BAM file and no RNAME or POS information? : bioinformatics

Newbie here. Please, play nice. I got possession of a set of 4 .bam files that stores the exome of an individual, around 400 MB each. I used samtools to generate a 2.4 GB .sam file out of one of the .bam files, and I found it contains lines with…

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genetic epidemiology postdoc

Qualification Details. Objective/methods: This report investigates by histology, immunohistochemistry and in situ hybridization the histological and . Philip Lupo, Ph.D. Dr. Lupo is a co-principal investigator in the Systems Epidemiology of Cancer Training Program and an associate professor in the Section of Hematology-Oncology in the Department of Pediatrics. . «Genetic…

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MND1 Expression as a Predictor of Breast Cancer Survival

Introduction Breast cancer (BC) is the most commonly diagnosed cancer in women, and it is the main cause of cancer mortality in women around the world.1 Although standard treatments for breast cancer, including surgery, radiotherapy, chemotherapy, endocrine therapy, targeted therapy, and immunotherapy, have greatly improved during the last few decades.2,3…

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difficulty filtering vcf file with vcftools

difficulty filtering vcf file with vcftools 1 I had a large VCF file named “common_known_variants.vcf ” which contains all known human variants downloaded from ftp.ncbi.nlm.nih.gov/snp/organisms/human_9606_b151_GRCh38p7/VCF/00-common_all.vcf.gz -O common_known_variants.vcf.gz I’m trying to extract the known variants from only chromosomes 1,2,3,9,22, and X and write them in a new vcf file with the…

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George Church on 4D Omics, Natural Computing, and the BioWeatherMap

By Allison Proffitt May 4, 2022 | George Church opened the 20th Anniversary Bio-IT World Conference & Expo last night, speaking virtually to a packed room at Boston’s Hynes Convention Center while many more attendees tuned in online.  Church, the Robert Winthrop Professor, Genetics, Harvard Medical School, spoke about both…

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Latest dbSNP VCF

This is the directory you’re looking for: ftp.ncbi.nih.gov/snp/redesign/latest_release/VCF/ curl -s ftp.ncbi.nih.gov/snp/redesign/latest_release/VCF/GCF_000001405.39.gz | zcat | head ##fileformat=VCFv4.2 ##fileDate=20210513 ##source=dbSNP ##dbSNP_BUILD_ID=155 ##reference=GRCh38.p13 ##phasing=partial ##INFO=<ID=RS,Number=1,Type=Integer,Description=”dbSNP ID (i.e. rs number)”> ##INFO=<ID=GENEINFO,Number=1,Type=String,Description=”Pairs each of gene symbol:gene id. The gene symbol and id are delimited by a colon (:) and each pair is delimited by a…

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Frontiers | COMMD2 Upregulation Mediated by an ncRNA Axis Correlates With an Unfavorable Prognosis and Tumor Immune Infiltration in Liver Hepatocellular Carcinoma

Introduction Liver hepatocellular carcinoma (LIHC) is the most common type of primary cancer in the liver and third leading cause of cancer-related mortality worldwide (1). Although substantial improvements have been made in LIHC therapy, particularly in molecular targeted therapy and immunotherapy (2, 3), the 5-year survival rate of LIHC is…

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GelAnalyzer (ImageJ 1.53d API)

GelAnalyzer (ImageJ 1.53d API) JavaScript is disabled on your browser. All Implemented Interfaces: PlugIn public class GelAnalyzer extends Object implements PlugIn This plugin generates gel profile plots that can be analyzed using the wand tool. It is similar to the “Gel Plotting Macros” in NIH Image. Constructor Summary Constructors  Constructor…

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NCBI/mweb11 – WWW Error 404 Diagnostic

NCBI/mweb11 – WWW Error 404 Diagnostic The page you requested ( h t t p : / / w w w . n c b i . n l m . n i h . g o v / g e o / q u e r y / a…

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Postdoc / Research Scientist in Bioinformatics and Computational Genomics

Job Description Are you a computer geek with a strong interest in genomics? Do you want to use your computational skills to solve human diseases? At the Department of Neurology at Harvard Medical School and Brigham & Women’s Hospital, we have two vacant positions: postdoctoral fellow and research scientist in…

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Endometriosis-related functional modules and hub genes

Introduction Endometriosis (EMS) is a chronic gynecological disease defined as implantation and periodic growth of the endometrial glands and stroma outside the uterine cavity, causing chronic pelvic pain, severe dysmenorrhea, and infertility in 10% reproductive-age women, among which the infertility rate is approximately 30–50%.1,2 Surgical excision is commonly used for…

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Atrial standstill, digenic (GJA5/SCN5A), 108770, Autosomal dominant; ATRST1 (Atrial standstill) (GJA5 gene) (Sequence Analysis-All Coding Exons) (Postnatal) – Clinical test – NIH Genetic Testing Registry (GTR)

Overview Test order codeHelpLaboratory’s order or catalog code for the test (used in the order requisition form).: 1586 Atrial standstill, digenic (GJA5/SCN5A), 108770, Autosomal dominant; ATRST1 (Atrial standstill) (GJA5 gene) (Sequence Analysis-All Coding Exons) (Postnatal) This is a clinical test intended for HelpPurposes or indications for the test. Lab-provided.: Diagnosis…

Continue Reading Atrial standstill, digenic (GJA5/SCN5A), 108770, Autosomal dominant; ATRST1 (Atrial standstill) (GJA5 gene) (Sequence Analysis-All Coding Exons) (Postnatal) – Clinical test – NIH Genetic Testing Registry (GTR)

Bioinformatics Scientist III – D3b at Children`s Hospital of Philadelphia

Job details Job type full-time Full job description Location: loc_roberts-roberts ctr pediatric research req id: 134035 shift: days employment status: regular – full time job summary the bioinformatics unit (bixu) within the center for data driven discovery (d3b) at the children’s hospital of philadelphia (chop) is seeking a level iii…

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NCBI/mweb21 – WWW Error 404 Diagnostic

NCBI/mweb21 – WWW Error 404 Diagnostic The page you requested ( h t t p : / / w w w . n c b i . n l m . n i h . g o v / g e o / q u e r y / a…

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Postdoctoral Fellow for Bioinformatics, Machine Learning and Biomarker Discovery, Tampa, Florida

At Moffitt Cancer Center, we come face-to-face with cancer every day, but we also see courage. And it inspires us to be the safest and best place for cancer care – to bring greater hope to every patient we serve. It’s why we’ve been continually named One of the Top…

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A hypoxia-related signature in lung squamous cell carcinoma

Introduction Lung cancer is the major leading cause of tumour-related deaths throughout the world, while lung squamous cell carcinoma (LUSC) as the second most common histological type of lung cancer.1 Each year, almost 1.8 million people are diagnosed with lung cancer worldwide and 400,000 of these die from LUSC.2,3 Due to…

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Generation of iPSCs from mouse fibroblasts with a single gene, Oct4, and small molecules

Li, Zhang, Yin, Yang, Du, Hou, Ge, Liu, Zhang, Zhang, Wu, Li, Liu, Wu, Song, Zhao, Shi, Deng (2011) Generation of iPSCs from mouse fibroblasts with a single gene, Oct4, and small molecules Cell Res 21(1) 196-204 Full text Abstract The introduction of four transcription factors Oct4,…

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Bioinformatics analysis identifies widely expressed genes

1Department of Orthopedics, The First Affiliated Hospital of Anhui Medical University, Hefei, Anhui, People’s Republic of China; 2Department of Pediatrics, The Shanxi Medical University, Taiyuan, Shanxi, People’s Republic of China Correspondence: Jun Qian, Department of Orthopedics, The First Affiliated Hospital of Anhui Medical University, 218 Jixi Road, Hefei, 230022, Anhui,…

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Can depression, anxiety and stress be treated with physical exercise?

“Over the past few years, with the pandemic, our anxious amygdala, the part of the brain that recognizes danger and puts us on high alert, has been on hyperalert, triggering a near-constant stress response” (Dmitry Kostyukov/The New York Times ) When Jennifer Heisz She was in grad school, borrowed a…

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Genetic characteristics involving the PD-1/PD-L1/L2 and CD73/A2aR axes and the immunosuppressive microenvironment in DLBCL

Key messages What is already known on this topic Targeting immunosuppressive pathways have emerged as promising strategies for cancer treatment. The genetic characteristics of PD-1/PD-L1/L2 (programmed cell death protein 1/programmed cell death ligand 1/ligand 2) and CD73/A2aR (A2a adenosine receptor) and the effect of these two signalings on dysfunctional CD8+…

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Postdoc – Human Genome Engineering, Cell Therapies, iPSCs, Synthetic Biology

The Truong lab is hiring for multiple Postdoctoral Fellow positions at NYU. We use large scale human genome engineering to develop off-the-shelf cell therapies using iPSCs.   The lab uses Synthetic Biology to build allogeneic Dendritic Cells from iPSCs as a platform for cell immunotherapies. We are interested in all…

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Researchers Discover New Model for ‘Global’ DNA Repair

Two recent studies provide a radically new picture of how bacterial cells continually repair damaged sections (lesions) in their DNA. Led by researchers from NYU Grossman School of Medicine, the work revolves around the delicacy of DNA molecules, which are vulnerable to damage by reactive byproducts of cellular metabolism, toxins,…

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Extensively drug resistant E. coli LZ00114

Introduction Escherichia coli is a common Gram-negative opportunistic pathogen that causes invasive host infections through virulence factors such as flagella, toxin secretion, and adhesins. According to the source of the infection, pathogenic E. coli can be classified as intestinal (diarrheagenic) and extraintestinal (ExPEC). Uropathogenic E. coli (UPEC) is the most…

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Nanofountain Probe Electroporation system enables efficient engineering of stem cells — ScienceDaily

One of the ultimate goals of medical science is to develop personalized disease diagnostics and therapeutics. With a patient’s genetic information, doctors could tailor treatments to individuals, leading to safer and more effective care. Recent work from a team of Northwestern Engineering researchers has moved the field closer to realizing…

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Search SRA Gateway for Metagenomics Data Wiki

Abstract The Sequence Read Archive (SRA)(https://www.ncbi.nlm.nih.gov/sra) houses all publicly available biological DNA sequence data to enhance reproducibility, reduce redundancy, and to allow for new discoveries by comparing data. The SRA stores raw sequencing data and alignment information from high-throughput sequencing platforms and is growing at the alarming rate of 10…

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Parallel reduction in flowering time from de novo mutations enable evolutionary rescue in colonizing lineages

Díaz, S. et al. Summary for Policymakers of the Global Assessment Report on Biodiversity and Ecosystem Services of the Intergovernmental Science-Policy Platform on Biodiversity and Ecosystem Services (IPBES, 2019). Fisher, R. A. The correlation between relatives on the supposition of Mendelian inheritance. Earth Environ. Sci. Trans. R. Soc. Edinb. 52,…

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Data Scientist II

Data Scientist II Overview Cures Start Here. At Fred Hutchinson Cancer Research Center, home to three Nobel laureates, interdisciplinary teams of world-renowned scientists seek new and innovative ways to prevent, diagnose and treat cancer, HIV/AIDS and other life-threatening diseases. Fred Hutch’s pioneering work in bone marrow transplantation led to the…

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Top 17 b cell lymphoma treatment in 2022

Below are the best information and knowledge on the subject b cell lymphoma treatment compiled and compiled by our own team tuhoangkaido: 1. Treating B-Cell Non-Hodgkin Lymphoma 2. Treatments for B-Cell Lymphoma 3. Diffuse Large B-Cell Lymphoma: Treatment Options 4. B-cell Lymphoma 5. B-cell Lymphoma: Types, Symptoms & Prognosis 6….

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Bioinformatics Programmer II Job in Texas

Summary The Bioinformatics Programmer II will assist with research project development for early-career faculty in the National Institutes of Health (NIH) All of Us Evenings with Genetics Research Education Program. This position will work collaboratively with the All of Us project directors and staff to achieve objectives and goals…

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Transcriptional kinetics and molecular functions of long noncoding RNAs

Ethical compliance The research carried out in this study has been approved by the Swedish Board of Agriculture, Jordbruksverket: N343/12. Cell culture Mouse primary fibroblasts were derived from adult (>10 weeks old) CAST/EiJ × C57BL/6J or C57BL/6J × CAST/EiJ mice by skinning, mincing and culturing tail explants (for at least 10 d) in DMEM high…

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Modeling injury and repair in kidney organoids reveals that homologous recombination governs tubular intrinsic repair

Submission history Received: 28 May 2021 Accepted: 14 January 2022 Acknowledgments We thank J. V. Bonventre, J. A. Lewis, and E. P. Rhee for institutional support; S. J. Hill for insightful discussion and sharing antibodies; Y. Yoda for cell culture; L. Racusen of Johns Hopkins University for the HKC-8 cell…

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Workflow Platforms for Systems Genetics

Workflow Platforms for Systems Genetics eQTL Platforms eQTL Viewer Mouse Genome Informatics: Phenotypes, Alleles & Disease Models PhenoGen Informatics (CO U) eXtensible Genotype And Phenotype platform (XGAP) MOLGENIS & MetaNetwork, Swertz & Jansen, U Groningen Weighted Gene Co-expression Network Analysis (WGCNA), Horvath, UCLA iPlant Sage Bionetworks Repository: Synapse GenomeSpace Institute…

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Bacterial 23S Ribosomal RNA RefSeq Targeted Loci Project

Bacterial 23S Ribosomal RNA RefSeq Targeted Loci Project We’re sorry, but GBIF doesn’t work properly without JavaScript enabled. Our website has detected that you are using an outdated insecure browser that will prevent you from using the site. We suggest you upgrade to a modern browser. Citation National Center for…

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Exosomal microRNA-618 derived from mesenchymal stem cells attenuate the progression of hepatic fibrosis by targeting Smad4

Introduction Hepatic fibrosis (HF) is a pathological phenomenon produced in the process of long-term damage and repair in the liver [1,2]. During the formation of HF, hepatocytes are damaged by various factors, such as chronic liver disease, and excessive intake of alcohol, and secrete a variety of cytokines [3]. Subsequently,…

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Validation of hub genes in acute pancreatitis

Introduction Acute pancreatitis (AP) is a common disease found in clinics, and requires urgent Hospital admission. The incidence of AP is increasing in recent years worldwide.1 The patients with AP increased from 1,727,789.3 to 2,814,972.3 between 1990 and 2019 in 204 countries and territories.2 Meanwhile, nearly 20% of AP patients…

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Using AnnoTree to Get More Assignments, Faster, in DIAMOND+MEGAN Microbiome Analysis

INTRODUCTION Next-generation sequencing (NGS) has revolutionized many areas of biological research (1, 2), providing ever-more data at an ever-decreasing cost. One such area is microbiome research, the study of microbes in their theater of activity using metagenomic sequencing (3). Here, deep short-read sequencing, and improving performance of long-read sequencing, are…

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Fatty infiltration after rotator cuff tear

Introduction Rotator cuff tear (RCT) is a common shoulder disorder causing shoulder pain and disability. The prevalence of full-thickness RCT is 20.7% in the general population, and increased with age.1 Rotator cuff play essential roles in shoulder function and the treatment of proximal humeral fractures.2,3 It is important to repair…

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API for NCBI Accession ID (GenBank or RefSeq) generation from a list of species names? : bioinformatics

TL;DR: How can I convert a list of species names (common or scientific) into a corresponding list of NCBI database accession IDs to download the respective species’ reference genome from NCBI. The NCBI urls’ are not common or scientific name compatible so a regular python script for web scrapping that…

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CRISPR-Cas9 Gene Therapy for Duchenne Muscular Dystrophy

Ishino Y, Shinagawa H, Makino K, et al. Nucleotide sequence of the iap gene, responsible for alkaline phosphatase isozyme conversion in Escherichia coli, and identification of the gene product. J Bacteriol. 1987;169:5429–33. CAS  PubMed  PubMed Central  Google Scholar  Jansen R, van Embden JDA, Gaastra W, et al. Identification of genes…

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Identification of a four-gene signature & PTC.

Introduction Thyroid carcinoma (THCA) is the most common type of endocrine malignancy and its incidence is increasing.1 Based on its histopathological characteristics, thyroid carcinoma can be classified into multiple subtypes, such as papillary thyroid carcinoma (PTC), follicular thyroid carcinoma, and anaplastic thyroid carcinoma.2 PTC is the most common subtype of…

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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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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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How to convert transcript-relative coordinates to genomic coordinates?

How to convert transcript-relative coordinates to genomic coordinates? 0 I have queried using Entrez Utilities (efetch: www.ncbi.nlm.nih.gov/books/NBK25499/) and obtained annotations for transcripts like the following: >Feature ref|NM_152486.3| 1 2557 gene gene SAMD11 gene_syn MRS gene_desc sterile alpha motif domain containing 11 db_xref GeneID:148398 db_xref HGNC:HGNC:28706 db_xref MIM:616765 How/what database should…

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Senior Bioinformatics Software Developer – Bethesda

Medical Science & Computing, (MSC), a Dovel company, is seeking skilled Senior Bioinformatics Software Developers to join our team supporting our client, NCBI at the National Institutes of Health, (NIH) in Bethesda, MD. The National Center for Biotechnology Information (NCBI) is part of the National Library of Medicine (NLM) at…

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[BioC] problem with GEOquery

Hi to everybody, i have a little problem with GEOquery .i when I’m trying to download the GSE2841 dataset I encounter the gse <- getGEO(“GSE2841”) try with URL‘ftp.ncbi.nih.gov/pub/geo/data/geo/by_series/GSE2841_family.soft.gz’Error in downloading the.file(myurl, destfile, mode = mode) :impossible to open URL‘ftp.ncbi.nih.gov/pub/geo/data/geo/by_series/GSE2841_family.soft.gz'&#8221; why???????????? Please help me Best regards Dr Alberto GoldoniMedical Genetics UnitS….

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Bacterial 16S Ribosomal RNA RefSeq Targeted Loci Project

Bacterial 16S Ribosomal RNA RefSeq Targeted Loci Project We’re sorry, but GBIF doesn’t work properly without JavaScript enabled. Our website has detected that you are using an outdated insecure browser that will prevent you from using the site. We suggest you upgrade to a modern browser. Citation McVeigh R (2013)….

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Failure to detect mutations in U2AF1 due to changes in the GRCh38 reference sequence

Materials and Methods Genomic data was collected as part of the MDS National History Study or The Cancer Genome Atlas project and consented appropriately under those protocols 8 Sekeres M.A. Gore S.D. Stablein D.M. DiFronzo N. Abel G.A. DeZern A.E. Troy J.D. Rollison D.E. Thomas J.W. Waclawiw M.A. Liu J.J….

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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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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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