Tag: genomic

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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Research Scientist, Bioinformatician, Cancer Science Institute 1 job with NATIONAL UNIVERSITY OF SINGAPORE

JOB DESCRIPTION Analyze and integrate various NGS data Build and reproduce pipelines to process all types of DNA and RNA sequencing data Maintain all source code within Git and Dockerize all pipeline components Liaise with the Scaling Unit to convert pipelines into scalable workflows To…

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Bedtools Bam To Bed With Code Examples

Bedtools Bam To Bed With Code Examples With this article, we’ll look at some examples of how to address the Bedtools Bam To Bed problem . bedtools bamtobed [OPTIONS] -i <BAM> As we have seen, a large number of examples were utilised in order to solve the Bedtools Bam To…

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Strata Oncology hiring Senior/Principal Bioinformatics Scientist in United States

JOB TITLE: Senior/Principal Bioinformatics Scientist DEPARTMENT: Software Engineering/Bioinformatics REPORTS TO: Sr. Director of Bioinformatics LOCATION: Ann Arbor, MI, or Remote At Strata our mission is to accelerate the impact of precision medicine for patients with cancer. Job Summary We’re seeking an experienced data scientist to join our Bioinformatics team. We…

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Three Noteworthy Applications of CRISPR

Only 10 years ago, Nobel prize-winning work introduced CRISPR, or clustered regularly interspaced short palindromic repeats, as a new and powerful genome editing tool. Since then, many exciting applications of the CRISPR-Cas9 system have been developed and proposed, giving a taste of what is yet to come.   Progress has…

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Bioinformatics Analyst job in Lexington, Kentucky at University of Kentucky

Posting Details Posting Details Job Title Bioinformatics Analyst Requisition Number RE35885 Working Title Department Name 7H025:CANCER CENTER-CORE SUPPORT Work Location Lexington, KY Grade Level 46 Salary Range $50,981-84,115/year Type of Position Staff Position Time Status Full-Time Required Education MS Click here for more information about equivalencies: www.uky.edu/hr/employment/working-uk/equivalencies Required Related Experience…

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Sr. Scientist, Bioinformatics | Pivot Bio

Company Half of our world’s food supply is dependent on synthetic nitrogen fertilizer, yet it has serious environmental impacts. Fertilizer contributes … View Company Profile Job Description About Pivot Bio:   Fueled by an innovative drive and a deep understanding of the soil microbiome, Pivot Bio is pioneering game-changing advances in…

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NCSU Job Openings – Full Professor – Bioinformatics

Posting Details Posting Information Posting Number PG191392EP Internal Recruitment No Working Title Assistant/Associate/Full Professor – Bioinformatics Anticipated Hiring Range Commensurate With Credentials, Qualifications, And Experience Work Schedule Academic position – schedule varies. Job Location Raleigh, NC Department Chancellor’s Faculty Excellence Program About The Department NC State University provides a vibrant…

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The CEO of CRISPR Therapeutics AG (NASDAQ:CRSP) sells 25,000 shares of the company’s stock.

The CEO of CRISPR Therapeutics AG (NASDAQ: CRSP), Samarth Kulkarni, sold 25,000 shares of the business’s stock on September 28. The shares were sold at an average price of $64.61 for a total transaction cost of $1,615,250.00. As a result of the transaction, the CEO now directly owns 290,279 company…

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Rockefeller University Jobs – Bioinformatics Specialist in New York, New York, United States

Job: IRC28479 Description Job Title Bioinformatics Specialist Laboratory / Department Systems Cancer Biology Department Description Cancer remains a daunting problem despite decades of active research into its molecular causes. Such studies have predominantly focused on the earliest stages of cancer progression such as the formation of a cancer or genes…

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Identification of unique DNA methylation sites in Kabuki syndrome using whole genome bisulfite sequencing and targeted hybridization capture followed by enzymatic methylation sequencing

Niikawa N, Matsuura N, Fukushima Y, Ohsawa T, Kajii T. Kabuki make-up syndrome: a syndrome of mentalretardation, unusual facies, large and protruding ears, and postnatal growth deficiency. J Pediatrics. 1981;99:565–9. CAS  Article  Google Scholar  Kuroki Y, Suzuki Y, Chyo H, Hata A, Matsui I. A new malformation syndrome of long…

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Population-level variation in enhancer expression identifies disease mechanisms in the human brain

Schizophrenia Working Group of the Psychiatric Genomics Consortium. Biological insights from 108 schizophrenia-associated genetic loci. Nature 511, 421–427 (2014). PubMed Central  Article  CAS  Google Scholar  Visscher, P. M. et al. 10 years of GWAS discovery: biology, function, and translation. Am. J. Hum. Genet. 101, 5–22 (2017). CAS  PubMed  PubMed Central …

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Comparative chloroplast genome and phylogenetic analyses of Chinese Polyspora

Choo, L. M., Niissalo, M. A., Leong, P. K. F. & Khew, G. S. The complete plastome sequence of Gordonia penangensis Ridl. supports the transfer of Asian Gordonia into Polyspora (Theaceae). Phytotaxa 458, 159–166 (2020). Nguyet, H. N. L. et al. An updated checklist of Theaceae and a new species…

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Modelling urea cycle disorders using iPSCs

Gebhardt, R. & Matz-Soja, M. Liver zonation: Novel aspects of its regulation and its impact on homeostasis. World J. Gastroenterol. 20, 8491–8504 (2014). PubMed  PubMed Central  Article  Google Scholar  Summar, M. L. et al. The incidence of urea cycle disorders. Mol. Genet Metab. 110, 179–180 (2013). CAS  PubMed  PubMed Central …

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Single-cell multi-omics of human clonal hematopoiesis reveals that DNMT3A R882 mutations perturb early progenitor states through selective hypomethylation

Martincorena, I. et al. Somatic mutant clones colonize the human esophagus with age. Science 362, 911–917 (2018). CAS  PubMed  PubMed Central  Google Scholar  Yizhak, K. et al. RNA sequence analysis reveals macroscopic somatic clonal expansion across normal tissues. Science 364, eaaw0726 (2019). CAS  PubMed  PubMed Central  Google Scholar  Yokoyama, A….

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Ten challenges for clinical translation in psychiatric genetics

Pardinas, A. F. et al. Common schizophrenia alleles are enriched in mutation-intolerant genes and in regions under strong background selection. Nat. Genet. 50, 381–389 (2018). CAS  PubMed  PubMed Central  Article  Google Scholar  Stahl, E. A. et al. Genome-wide association study identifies 30 loci associated with bipolar disorder. Nat. Genet. 51,…

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Diversity and transmission of koala retrovirus: a case study in three captive koala populations

KoRV genetic diversity Illumina env amplicon deep sequencing was carried out on genomic DNA isolated from the peripheral blood mononuclear cells (PBMCs) of 64 koalas housed in three captive koala colonies within Australia, one in South-East Queensland (SE QLD; colony C, n = 33) and two in Sydney, New South Wales (NSW;…

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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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Job – Principal Biostistician/Bioinformatics job at Kenya Medical Research

Vacancy title: Principal Biostistician/Bioinformatics [ Type: FULL TIME , Industry: Research , Category: Research ] Jobs at: Kenya Medical Research – KEMRI Deadline of this Job: 06 October 2022   Duty Station: Within Kenya , Kisumu , East Africa SummaryDate Posted: Tuesday, September 20, 2022 , Base Salary: Not Disclosed…

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Post-Doctoral Associate in the Division of Science Biology, Dr. Fabio Piano job with NEW YORK UNIVERSITY ABU DHABI

Description Our laboratory at New York University Abu Dhabi is expanding our expert team working on molecular networks and analysis of bioactive molecules in animal development using C. elegans. We use muti-disciplinary approaches to uncover mechanisms underlying fundamental biomolecular and biochemical processes during embryonic development.  A long standing interest in the laboratory has…

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Electroporation Protocol Bio Rad Gene Pulser

Unit will be tested before shipping. Rad Gene Pulser different transformations. We autoclave the Freezing Mix and store at room temperature. No limit on the number of engaged members from Commun. It is not necessary to incubate DNA with cells. We have a large inventory of equipment, components and parts…

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Bioinformatics job in Riyadh

Riyadh, Saudi Arabia Center for Genomic Medicine Full time The Center for Genomic Medicine (CGM) plans to expand its IT and bioinformatics teams with experts who will be responsible for maintaining the bioinformatics IT infrastructure and developing, maintaining, and execution of computational pipelines…

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Research Analysts Offer Predictions for CRISPR Therapeutics AG’s Q3 2022 Earnings (NASDAQ:CRSP)

CRISPR Therapeutics AG (NASDAQ:CRSP – Get Rating) – Equities researchers at Zacks Research issued their Q3 2022 earnings per share estimates for CRISPR Therapeutics in a report released on Wednesday, September 14th. Zacks Research analyst S. Ganoria anticipates that the company will earn ($2.44) per share for the quarter. The…

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Broad Institute Study Evaluates Ultima Genomics Sequencer for Single-Cell RNA-Seq

NEW YORK – Results from single-cell RNA sequencing libraries run on the new Ultima Genomics UG100 are “very similar” to those produced on Illumina’s NovaSeq, a new study says. However, the platform shows bias against 3′ gene expression libraries. Led by researchers from the Broad Institute as part of a…

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All transcript variants in gene MAD1L1 – BIPMed SNP Array

Legend Please note that a short description of a certain column can be displayed when you move your mouse cursor over the column’s header and hold it still. Below, a more detailed description is shown per column. Effect: The variant’s effect on the protein’s function, in the format ‘R/C’ where…

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Epidemiology, genetic diversity, and association of canine circovirus infection in dogs with respiratory disease

Animal and ethics A total of 190 dogs, comprising both healthy dogs (n = 76) and dogs with respiratory symptoms (n = 114), were included in this study. The research assessed nasal swab (NS) and oropharyngeal swab (OS) collected between January and November 2020. The samples from the healthy group were collected from clinically…

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Research Fellow, Bioinformatician – Cancer Science Institute job with NATIONAL UNIVERSITY OF SINGAPORE

Job Description A postdoctoral position is available immediately in Prof Chng Wee Joo’s groups for a highly motivated PhD graduate with experience in Bioinformatics (computational genomics). The focus of the lab is on deciphering transcriptional and genomic abnormalities in the context of blood cancer, including epigenetic and superenhancer deregulation, using single cell…

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Bioinformatics Intern Job Des Moines IA

Corteva Agriscience is seeking two highly capable and motivated 3 month interns to develop and deploy computational biology solutions by leveraging their knowledge of best practices to solve meaningful challenges in the areas of bioinformatics and computational biology using high performance computing.  As part of our R&D data science…

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FBXW7 and Its Downstream NOTCH Pathway Could be Potential Indicators of Organ-Free Metastasis in Colorectal Cancer

doi: 10.3389/fonc.2021.783564. eCollection 2021. Dongzheng Li  1 , Shiye Jiang  1 , Xin Zhou  1 , Chengshuai Si  1 , Peng Shao  1 , Qian Jiang  1 , Liuqing Zhu  2 , Lu Shen  2 , Qi Meng  2 , Jiani C Yin  2 , Yang Shao  2   3 , Yueming Sun  4 , Liu Yang  1 Affiliations Expand Affiliations 1…

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[SOLVED] Special .bed to .fa conversion (GenomicCoordinates/DNAsequence) ~ Linux Fixes

My aim is to create a custom protein sequence reference file (protein.fa) from genomic coordinates (origin.bed). (origin.bed; with Chromosome, start, end, TranscriptID, strand, GeneID) chr1 109202569 109202584 ENST00000370031.1_uORF_0 – ENSG00000162639.11 chr1 109203584 109203617 ENST00000370031.1_uORF_0 – ENSG00000162639.11 chr11 102188276 102188302 ENST00000263464.3_uORF_0 + ENSG00000023445.9 chr11 10830291 10830306 ENST00000530211.1_uORF_1 – ENSG00000110321.11 chr11 10830400…

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SR. SCIENTIST, HUMAN GENETICS BIOINFORMATICS in San Francisco, CA for Genentech

Details Posted: 09-Sep-22 Location: San Francisco, California Type: Full Time Years of Experience: Less than 2 Join a Team that Lives to Improve Lives  People come to Genentech from across disciplines and across the world to solve our most challenging medical conditions. You’ll find inspiration in our passion for biotechnology,…

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How can I print and write the strain /isolate/voucher number of a SeqRecord objec in biopython?

The isolate is a qualifier of the source feature that you can access like so: from Bio import SeqIO from pprint import pprint # Read genbank file for rec in SeqIO.parse(“genome.gb”, “genbank”): source = rec.features[0] pprint(source.qualifiers) will print: OrderedDict([(‘organism’, [‘Amauroderma calcitum’]), (‘mol_type’, [‘genomic DNA’]), (‘isolate’, [‘FLOR 50931’]), (‘db_xref’, [‘taxon:1774182’]), (‘country’,…

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CRISPR Therapeutics AG (NASDAQ:CRSP) Shares Purchased by Bank of Montreal Can

Bank of Montreal Can increased its stake in CRISPR Therapeutics AG (NASDAQ:CRSP – Get Rating) by 2,322.4% in the 1st quarter, according to the company in its most recent filing with the SEC. The institutional investor owned 119,955 shares of the company’s stock after acquiring an additional 115,003 shares during…

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Data Scientist – Bioinformatics at Faculty – London, England, United Kingdom

Faculty is one of Europe’s leading applied artificial intelligence companies. We build, deploy and operate AI solutions to increase our customers’ performance and help them realise their full potential. We believe that AI should be trustworthy, impactful and beneficial across society. Those principles have shaped our work with more than…

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The genus Serratia revisited by genomics

Merlino, C. P. Bartolomeo Bizio’s letter to the most eminent priest, Angelo Bellani, concerning the phenomenon of the red-colored polenta [translated from the Italian]. J. Bacteriol. 9, 527–543 (1924). Grimont, P. A. D. & Dulong de Rosnay, H. L. C. Numerical study of 60 strains of Serratia. J. Gen. Microbiol….

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Which is a stop codon?

A stop codon is a sequence of three nucleotides (a trinucleotide) in DNA or messenger RNA (mRNA) that signals a halt to protein synthesis in the cell. There are 64 different trinucleotide codons: 61 specify amino acids and 3 are stop codons (i.e., UAA, UAG and UGA). What are the…

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Evolution of stickleback spines through independent cis-regulatory changes at HOXDB

Darwin, C. On the Origin of Species by Means of Natural Selection (John Murray, 1859). Owen, R. On the Archetype and Homologies of the Vertebrate Skeleton (Richard and John E. Taylor, 1848). Stern, D. L. & Orgogozo, V. Is genetic evolution predictable? Science 323, 746–751 (2009). CAS  PubMed  PubMed Central …

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Polygenic enrichment distinguishes disease associations of individual cells in single-cell RNA-seq data

Visscher, P. M. et al. 10 years of GWAS discovery: biology, function, and translation. Am. J. Hum. Genet. 101, 5–22 (2017). CAS  PubMed  PubMed Central  Article  Google Scholar  Hekselman, I. & Yeger-Lotem, E. Mechanisms of tissue and cell-type specificity in heritable traits and diseases. Nat. Rev. Genet. 21, 137–150 (2020)….

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Cellosaurus cell line LoVo (CVCL_0399)

Publications PubMed=1260746Drewinko B., Romsdahl M.M., Yang L.Y., Ahearn M.J., Trujillo J.M.Establishment of a human carcinoembryonic antigen-producing colon adenocarcinoma cell line.Cancer Res. 36:467-475(1976) PubMed=7104989; DOI=10.1016/0165-4608(82)90076-0Chen T.-R., Hay R.J., Macy M.L.Karyotype consistency in human colorectal carcinoma cell lines established in vitro.Cancer Genet. Cytogenet. 6:93-117(1982) PubMed=3335022Alley M.C., Scudiero D.A., Monks A., Hursey M.L.,…

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Caribou Biosciences to Participate in Upcoming Investor Conferences

Caribou Biosciences, Inc. BERKELEY, Calif., Aug. 31, 2022 (GLOBE NEWSWIRE) — Caribou Biosciences, Inc. (Nasdaq: CRBU), a leading clinical-stage CRISPR genome-editing biopharmaceutical company, today announced the company’s participation in the following investor conferences: Citi 17th Annual BioPharma Conference, BostonPanel participation on September 8, 2022, 11:20 am ETWebcast H.C. Wainwright 24th…

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A New Kind of Liquid Biopsy

Canada’s STREAM project uses genomics to advance watershed health monitoring Northampton, MA –News Direct– Illumina Photo: Community members sample the Skeena sub-watershed in Smithers, British Columbia. Rivers and streams are vital to communities everywhere, for drinking water, transportation, and leisure. But pollution, drought, and climate change are taking their toll,…

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Research Fellow to monitor SARS-CoV-2 and other viral pathogens in samples, School of Biological Sciences at Queen’s University Belfast, UK

Application closing date: 05/09/2022 Job reference: 22/110138 The School of Biological Sciences at Queen’s University Belfast, is currently seeking to appoint an exceptional candidate to the post of Research Fellow. The successful candidate will be an active member of a research team monitoring SARS-CoV-2 and other viral pathogens in samples…

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NODULIN HOMEOBOX is required for heterochromatin homeostasis in Arabidopsis

NDX is a heterochromatin-associated factor To understand the genome-wide regulatory roles of NDX, we first analyzed its genomic distribution. For this, we performed chromatin immunoprecipitation sequencing (ChIP-seq) in 10-day old Arabidopsis seedlings expressing N-terminally and C-terminally tagged NDX fusion proteins (flag-NDX/ndx1-1(FRI)/flc-2 and NDX-GFP/ndx1-1(FRI)/flc-2, respectively) expressed from their endogenous promoter21,32. The…

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Simultaneously induced mutations in eIF4E genes by CRISPR/Cas9 enhance PVY resistance in tobacco

Pasin, F., Daròs, J.-A. & Tzanetakis, I. E. Proteome expansion in the Potyviridae evolutionary radiation. FEMS Microbiol. Rev. 46, 011. doi.org/10.1093/femsre/fuac011 (2022). Article  Google Scholar  Karasev, A. V. & Gray, S. M. Continuous and emerging challenges of Potato virus Y in potato. Annu. Rev. Phytopathol. 51, 571–586 (2013). CAS  PubMed …

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Differential enrichment of H3K9me3 in intrahepatic cholangiocarcinoma | BMC Medical Genomics

Sia D, Tovar V, Moeini A, Llovet JM. Intrahepatic cholangiocarcinoma: pathogenesis and rationale for molecular therapies. Oncogene. 2013;32(41):4861–70. CAS  Article  Google Scholar  Sungwan P, Lert-Itthiporn W, Silsirivanit A, Klinhom-On N, Okada S, Wongkham S, Seubwai W. Bioinformatics analysis identified CDC20 as a potential drug target for cholangiocarcinoma. PeerJ. 2021;9:e11067. Article …

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Unveiling new perspective of phylogeography, genetic diversity, and population dynamics of Southeast Asian and Pacific chickens

Food and Agriculture Organization. The state of the world’s animal genetic resources for food and agriculture (Rome, 2007). Lawler, A. Dawn of the chicken revealed in Southeast Asia. Science 368, 1411 (2020). ADS  CAS  PubMed  Article  Google Scholar  Sykes, N. A social perspective on the introduction of exotic animals: the…

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Principal Software Engineer – Bioinformatics Job in Mississauga, Ontario – Hoffmann-La Roche Ltd

Impact HealthcareRoche Sequencing is not only changing science, but we are changing lives. Our software teams are laying the groundwork for the future by developing powerful bioinformatics algorithms, data analysis tools, and software/systems infrastructures so researchers and clinicians can make better health decisions faster. The path to curing cancer lies…

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Research Fellow, Bioinformatician, Department of Medicine job with NATIONAL UNIVERSITY OF SINGAPORE

Job Description To provide specialist bioinformatics analyses of genomic, transcriptomic, proteomic and cellular phenotypic data to investigate genetic influences on gene expression and vascular cell behaviour in relation to cardiovascular diseases. To provide input into the design of experimental studies and the preparation of research grants and scientific…

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Global Genome Editing Market Report 2022: Developing Biotechnology Industry in Emerging Regions Presents Opportunities – ResearchAndMarkets.com

DUBLIN–(BUSINESS WIRE)–The “Genome Editing Market Forecast to 2028 – COVID-19 Impact and Global Analysis By Technology, Application, and End User” report has been added to ResearchAndMarkets.com‘s offering. The genome editing market is projected to reach US$ 16,986.69 million by 2028 from US$ 5,199.40 million in 2021; it is expected to…

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Data Management Coordinator – Germany Jobs IT Engineering Academic Remote NGO Charity Work

About the team/jobThe Data Science Centre, launched in February 2022 to promote cutting-edge research and services in Data Science across all of EMBL, is looking for a bioinformatician, computational biologist or computer scientist as a Data Management Coordinator. The Data Science Centre will ensure that biological research data at our…

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MicrobioSeq Boosts Microbial Community Research with Long-Read Metagenomic Sequencing

MicrobioSeq represents the microbial genomics division of CD Genomics, headquartered in New York, USA. CD Genomics is a genomics service company with a good reputation for providing reliable sequencing, genotyping, microarray, and bioinformatics services. The company provides the long-read metagenomics sequencing service using PacBio SMRT platform, which can sequence multiple…

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Acute phase of ischemia-reperfusion in rats

Introduction Stroke is one of the leading causes of death and disability worldwide, which causes substantial economic and social burdens.1 Ischemic stroke is caused by insufficient blood and oxygen supply to the brain,2 accounting for about 85% of the casualties of stroke patients.3 The concept of treatment for ischemic injury…

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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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Whole Genome Association Study of the Plasma Metabolome Identifies Metabolites Linked to Cardiometabolic Disease in Black Individuals

Division of Cardiovascular Medicine, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA, US Usman A. Tahir, Daniel H. Katz, Jeremy M. Robbins, Zsu-Zsu Chen, Mark D. Benson, Daniel E. Cruz, Debby Ngo, Shuliang Deng, Xu Shi, Shuning Zheng, Aaron S. Eisman, Laurie Farrell, James G. Wilson & Robert E. Gerszten Broad Institute of Harvard and MIT, Cambridge, MA, US Julian Avila-Pachecho, Alexander G….

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Can safeguards for digital genomic data from biodiversity be ensured

Developing countries feel digital sequence information provides a loophole through which developed countries can circumvent the Convention of Biodiversity Negotiations on how to regulate the use of digital sequence information (DSI) of genetic resources could further delay the finalisation of the Post-2020 Global Biodiversity Framework under the UN Convention on Biological Diversity (CBD)….

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Hands On Next Generation Sequencing Using Galaxy Servers | Free eBooks Download

Category: Tutorial Posted on 2022-08-20, by voska89. Description Published 08/2022MP4 | Video: h264, 1280×720 | Audio: AAC, 44.1 KHz, 2 ChGenre: eLearning | Language: English + srt | Duration: 28 lectures (2h 6m) | Size: 615.8 MBLearn about Next-generation sequencing and use of online platform and perform Data analysis of…

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Illumina Bioinformatics Jobs For BSc, MSc & PhD

Illumina Bioinformatics Jobs For BSc, MSc & PhD – Apply On-line Illumina Bioinformatics Jobs For BSc, MSc & PhD – Apply On-line. Bioinformatics specialist job openings at Illumina. and eligible candidates can take a look at the entire particulars on the identical under Job Identify – Sr. Bioinformatics Specialist, India…

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Bioinformatics Software Engineer I – Genomics | Memorial Sloan Kettering Cancer Center

Nationwide, Company Overview At Memorial Sloan Kettering (MSK), we’re not only changing the way we treat cancer, but also the way the world thinks about it. By working together and pushing forward with innovation and discovery, we’re driving excellence and improving outcomes. We’re treating cancer, one patient at a time….

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Subtype and cell type specific expression of lncRNAs provide insight into breast cancer

lncRNA expression according to breast cancer clinicopathological subtypes To identify lncRNAs expressed by specific breast cancer subtypes or associated with clinicopathological features, we analyzed RNA-sequencing data from two large independent breast cancer cohorts: SCAN-B (n = 3455)17 and TCGA-BRCA (n = 1095). We focused on lncRNAs annotated in the Ensembl18 v93 non-coding reference transcriptome…

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Live-seq enables temporal transcriptomic recording of single cells

Biological materials RAW264.7, 293T and HeLa cells were obtained from ATCC. RAW264.7 cells with Tnf-mCherry reporter and relA-GFP fusion protein (RAW-G9 clone) were kindly provided by I.D.C. Fraser (National Institutes of Health). The IBA cell line derived from the stromal vascular fraction of interscapular brown adipose tissue of young male…

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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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Transcription-independent regulation of STING activation and innate immune responses by IRF8 in monocytes

Reagents, antibodies, viruses and cells LMW-Poly(I:C), LPS, 2′3′-cGAMP and DMXAA (InvivoGen); hydroxyurea, camptothecin and mitomycin C (MCE); GM-CSF, Flt3L (peproTech); lipofectamine 2000 (Invitrogen); polybrene (Millipore); RNAiso Plus (Takara); HT-DNA (Sigma); SYBR (BIO-RAD); dual-specific luciferase assay kit (Promega); ELISA kit for murine Ifn-β (PBL); ELISA kits for murine IP-10 (Biolegend) were…

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Error in Create switchAnalyzeRlist

Error in Create switchAnalyzeRlist 0 Hello everyone., I am using isoformswitchinganalysisR to look at different transcript expression and quantification data generated using Kallisto. I have stuck in step of Create switchAnalyzeRlist. According to warning error it looks I have problem in gtf file. Really appreciate anybody can help me how…

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Bioinformatics Analyst I/II in Seattle, WA for Fred Hutchinson Cancer Research Center

Details Posted: 13-Aug-22 Location: Seattle, Washington Type: Full-time Salary: Open Overview Fred Hutchinson Cancer Center is an independent, nonprofit, unified adult cancer care and research center that is clinically integrated with UW Medicine, a world leader in clinical care, research and learning. The first National Cancer Institute-designated cancer center in…

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Bioinformatics Analyst in Minneapolis, MN for University of Minnesota, Twin Cities

Details Posted: 13-Aug-22 Location: Minneapolis, Minnesota Salary: 43944.32 – 123022.07 Categories: Research Support – Laboratory/Non-Laboratory Staff/Administrative Additional Information: 2 openings available. The Research Informatics Solutions (RIS) group within the University of Minnesota Supercomputing Institute (MSI) is hiring two full-time Bioinformatics Analysts to support research at the University of Minnesota. Analysts…

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A novel causative functional mutation in GATA6 gene is responsible for familial dilated cardiomyopathy as supported by in silico functional analysis

Pérez-Serra, A. et al. Genetic basis of dilated cardiomyopathy. Int. J. Cardiol. 224, 461–472 (2016). PubMed  Article  Google Scholar  Petropoulou, E. et al. Digenic inheritance of mutations in the cardiac troponin (TNNT2) and cardiac beta myosin heavy chain (MYH7) as the cause of severe dilated cardiomyopathy. Eur. J. Med. Genet….

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Research Biologist Computational Bioinformatics Geneticist Research Associate Job in WORLDWIDE

Summary The Agricultural Research Service (ARS) is the United States Department of Agriculture’s chief scientific research agency and one of the world’s premiere scientific organizations. ARS Postdoctoral Research Associates are hired to supplement a lead scientist’s research on agricultural problems of high national priority affecting American agriculture. This opportunity is…

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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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Pandemic-Scale Phylogenomics Reveals The SARS-CoV-2 Recombination Landscape

Accurate and timely detection of recombinant lineages is crucial for interpreting genetic variation, reconstructing epidemic spread, identifying selection and variants of interest, and accurately performing phylogenetic analyses 1–4. During the SARS-CoV-2 pandemic, genomic data generation has exceeded the capacities of existing analysis platforms, thereby crippling real-time analysis of viral evolution…

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Senior Research Fellow, Quantitative Research Scientist – CHILD job with NATIONAL UNIVERSITY OF SINGAPORE

Job Description An exciting position is available with the NUS Yong Loo Lin School of Medicine’s Centre for Holistic Initiatives for Learning and Development (CHILD) for an enthusiastic, collaborative senior research fellow (research scientist) with strong quantitative skills. The scientist will work within highly transdisciplinary teams across multiple projects aiming…

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Nitrogen cycling and microbial cooperation in the terrestrial subsurface

Distribution of nitrogen-cycling pathways in groundwater Differences in nitrogen-cycling processes based on oxygen and nitrate concentrations Sixteen metagenomes (Table S4) were obtained from duplicate wells at four sites (A–D) from two unconfined alluvial aquifers (Canterbury, Fig. S1). These sites encompassed varied nitrate (0.45–12.6 g/m3), DO (0.37–7.5 mg/L), and dissolved organic carbon (DOC) (0–26 g/m3)…

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Interfering B cell receptor signaling via SHP-1/p-Lyn axis shows therapeutic potential in diffuse large B-cell lymphoma | Molecular Medicine

Alizadeh AA, Eisen MB, Davis RE, Ma C, Lossos IS, Rosenwald A, et al. Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature. 2000;403(6769):503–11. CAS  PubMed  Article  Google Scholar  Camicia R, Winkler HC, Hassa PO. Novel drug targets for personalized precision medicine in relapsed/refractory diffuse large…

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The Pitfalls of Evolutionary Genomics

Recent research analyzes mathematical models created to deduce conclusions about how evolution works at the level of populations of organisms. A study examines the benefits and drawbacks of evolutionary genomics. Claudius Ptolemy, an astronomer and mathematician from Alexandria in the second century, had a lofty goal. He wrote the Almagest, a…

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1,586 Shares in CRISPR Therapeutics AG (NASDAQ:CRSP) Acquired by Prospera Financial Services Inc

Prospera Financial Services Inc acquired a new position in CRISPR Therapeutics AG (NASDAQ:CRSP – Get Rating) during the 1st quarter, according to its most recent 13F filing with the Securities & Exchange Commission. The institutional investor acquired 1,586 shares of the company’s stock, valued at approximately $100,000. Several other institutional…

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CRISPR Therapeutics AG (NASDAQ:CRSP) Receives Consensus Rating of “Moderate Buy” from Brokerages

Shares of CRISPR Therapeutics AG (NASDAQ:CRSP – Get Rating) have been assigned an average recommendation of “Moderate Buy” from the twenty ratings firms that are currently covering the stock, MarketBeat reports. One equities research analyst has rated the stock with a sell rating, five have assigned a hold rating and…

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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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Cell-Free DNA NGS Yields Low Detection in Metastatic ccRCC

Cell-free DNA-based next-general sequencing (NGS) yielded low detection rates in patients with metastatic clear cell renal cell carcinoma (ccRCC), according to an analysis published in JCO Precision Oncology. Researchers performed NGS of tumor DNA and plasma DNA using the MSK-IMPACT platform in 110 patients with metastatic ccRCC. They explored detection…

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Senior Associate Computational Toxicologist job with Pfizer

This position will be responsible for the continued development and maintenance of RNAseq data analysis and other bioinformatics pipelines. DSRD has invested heavily in our capacity to generate genomic and transcriptomic data, including quickly evolving areas such as single cell RNAseq and spatial transcriptomics. The successful candidate will be responsible…

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EnWik > Expasy

Expasy is an online bioinformatics resource operated by the SIB Swiss Institute of Bioinformatics. It is an extensible and integrative portal which provides access to over 160 databases and software tools and supports a range of life science and clinical research areas, from genomics, proteomics and structural biology, to evolution…

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Brain hypermutability is a process associated with aging

Sequence analysis of 131 human brains has revealed the mutagenesis processes that take place throughout life, from development to senescence. In a new study published in the July 29, 2022, issue of Science, the authors described how high rates of brain somatic mutations (what they call hypermutability) correlated with age….

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Cross-ancestry genome-wide meta-analysis of 61,047 cases and 947,237 controls identifies new susceptibility loci contributing to lung cancer

Sampson, J. N. et al. Analysis of heritability and shared heritability based on genome-wide association studies for thirteen cancer types. J. Natl Cancer Inst. 107, djv279 (2015). PubMed  PubMed Central  Article  CAS  Google Scholar  Bosse, Y. & Amos, C. I. A decade of GWAS results in lung cancer. Cancer Epidemiol….

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New instrument can be clipped on to a smartphone to rapidly test for Zika virus in blood

As seen with the COVID-19 pandemic, detection methods that are rapid, simple, accurate, and sensitive are vital for detecting viral pathogens and for controlling the spread of infectious diseases. Unfortunately, laboratory-based methods often require trained personnel and involve complex procedures. In a new study, researchers at the University of Illinois…

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Agrigenomics Market: Rise in Demand for Crop and Livestock to Drive the Market

Wilmington, Delaware, United States, Transparency Market Research Inc.: Agrigenomics is defined as the study of the genetic makeup of crops and livestock and how genes influence the produce. Application of genomics in agriculture enables improvement in the sustainability and productivity in livestock and crop production. Read Report Overview – www.transparencymarketresearch.com/agrigenomics-market.html…

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Research Bioinformatician II – Li Lab – Computational Biomedicine

Everyone’s unique health journey is informed by data. Join us as we translate today’s discoveries into tomorrow’s medicine! Cedars-Sinai is home to some of the most advanced biomedical research and training programs in the world, which attracts renowned physician-scientists seeking an unparalleled environment for fostering invention and teamwork. The Department…

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State of New Jersey Common Pension Fund D Has $2.85 Million Stake in CRISPR Therapeutics AG (NASDAQ:CRSP)

State of New Jersey Common Pension Fund D boosted its stake in CRISPR Therapeutics AG (NASDAQ:CRSP – Get Rating) by 16.0% during the 1st quarter, according to the company in its most recent filing with the Securities and Exchange Commission (SEC). The institutional investor owned 45,404 shares of the company’s…

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The Human-Animal Genomic Bond Webinar

Since the dawn of domestication, humans have been shaping the traits of animals for the benefit of society by way of selective breeding. From selecting aesthetic and behavioral traits with dogs to improving growth efficiency and quality of meat and milk produced by livestock, the outcomes have impacted the evolution…

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RSCH DATA ANALYST I BIOINFORMATICS

Job Description Position Highlights: The Research Data Analyst I (Bioinformatics) will be responsible for conducting bioinformatics or statistical analyses in R, Python, SAS, or some other statistical software package under supervision of Principal Investigators from the Gastrointestinal Oncology (GI) Program. The Ideal Candidate: Familiarity with Next Generation sequencing Familiarity with…

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Signaturefd LLC Purchases 1,069 Shares of CRISPR Therapeutics AG (NASDAQ:CRSP)

Signaturefd LLC grew its position in shares of CRISPR Therapeutics AG (NASDAQ:CRSP – Get Rating) by 144.5% in the 1st quarter, according to the company in its most recent Form 13F filing with the Securities & Exchange Commission. The fund owned 1,809 shares of the company’s stock after purchasing an…

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Investment Opportunity Analysis and Industry Share Forecast 2028

The Magnetic Bead Purification Kits market report provides detailed competitive landscape of the global market. It includes company, market share analysis, product portfolio of the major industry participants. The report provides detailed segmentation of the Global Magnetic Bead Purification Kits industry based on product segment,…

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Spanish researchers find ‘weak point’ in multi-drug resistant tumors

Researchers from the National Cancer Research Center (CNIO) have discovered in cell lines one of the causes of multi-drug resistance and an strategy Potential for fight it. One of the great challenges of cancer is to understand why there is the patients What they don’t answer to treatments. In some…

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Development of a novel core genome MLST scheme for tracing multidrug resistant Staphylococcus capitis

Cui, B., Smooker, P. M., Rouch, D. A., Daley, A. J. & Deighton, M. A. Differences between two clinical Staphylococcus capitis subspecies as revealed by biofilm, antibiotic resistance, and pulsed-field gel electrophoresis profiling. J. Clin. Microbiol. 51, 9–14 (2013). CAS  PubMed  PubMed Central  Article  Google Scholar  Tevell, S., Hellmark, B.,…

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Volt – International hiring Lead Bioinformatics Engineer in United Kingdom

Role: Lead Bioinformatics Engineer I’m working with a leading genomics research and healthcare company who are working towards bringing genomic healthcare to all who need it, alongside enabling new scientific discovery and medical insights by using their unique genetic code to help diagnose, treat and prevent illnesses to compare many…

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SMAD4 rs10502913 | COPD

1Department of Pulmonary and Critical Care Medicine, Sinopharm Tongmei General Hospital, Datong, People’s Republic of China; 2China-Japan Friendship Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, People’s Republic of China; 3Department of Emergency, Chinese PLA General Hospital -Fourth Medical Center, Beijing, People’s Republic of China; 4School…

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Researchers assess the evolution and diversity of monkeypox virus genomes using phylogenomic analysis

In a recent study published in Travel Medicine and Infectious Disease, researchers phylogenomically analyzed the monkeypox virus (MPXV). Study: Phylogenomic analysis of the monkeypox virus (MPXV) 2022 outbreak: Emergence of a novel viral lineage? Image Credit: ART-ur/Shutterstock Background Since May 2022, there have been various reports of increasing MPVX infections…

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Sequencing Driven Metagenomics Market Size, Share, Regional Growth Analysis, Upcoming Trends, R&D Status with Current and Future Industry Figures Research Report 2028

The comprehensive Sequencing Driven Metagenomics market survey report covers an array of factors that have an influence on the market and Sequencing Driven Metagenomics industry which includes industry insight and critical success factors (CSFs), market segmentation and value chain analysis, industry dynamics, drivers, restraints, key opportunities, technology and application outlook,…

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Sr. Bioinformatics-Clinical Database Developer – CBL Path, Inc

Job Functions, Duties, Responsibilities and Position Qualifications: POSITION TITLE:Senior Bioinformatics-Clinical Database Developer STANDARDIZED JOB TITLE: Database Development, Web Application Development, and Clinical Analytics EXEMPT STATUS:  Exempt POSITION SUMMARY: Sr. Database Developer works with cross-functional groups & Medical Leadership for developing a databases for a clinical assays. The candidate is expected…

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Senior Scientist Applied Bioinformatics Job In San Francisco, CA 94103| TechCareers

At Bristol Myers Squibb, we are inspired by a single vision – transforming patients’ lives through science. In oncology, hematology, immunology and cardiovascular disease – and one of the most diverse and promising pipelines in the industry – each of our passionate colleagues contribute to innovations that drive meaningful change….

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Research Fellow, Head and Neck Cancer Lab job with NATIONAL UNIVERSITY OF SINGAPORE

Job Description The Head and Neck Cancer Genomics Laboratory (Principal Investigator: Dr Joshua Tay, MBBS, PhD) at the National University of Singapore is inviting applications for a postdoctoral research fellow / research scientist. The successful candidate will be involved in the identification of molecular targets in head and neck cancers…

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Uncharted genetic territory offers insight into human-specific proteins

When researchers working on the Human Genome Project completely mapped the genetic blueprint of humans in 2001, they were surprised to find only around 20,000 genes that produce proteins. Could it be that humans have only about twice as many genes as a common fly? Scientists had expected considerably more….

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