Category: Research

Cloud hiring levels in the pharmaceutical industry rose in June 2022

The proportion of pharmaceutical companies hiring for cloud related positions rose in June 2022 compared with the equivalent month last year, with 44.8% of the companies included in our analysis recruiting for at least one such position. This latest figure was higher than the 40.2% of companies who were hiring…

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German Cancer Research Center in the Helmholtz Association (DKFZ) hiring Postdoc in Bioinformatics, Medical Informatics or Biostatistics in Brussels, Brussels Region, Belgium

Offer DescriptionThe German Cancer Research Center is the largest biomedical research institution in Germany. With approximately 3,000 employees, we operate an extensive scientific program in the field of cancer research. Together with university partners at seven renowned partner sites, we have established the German Cancer Consortium (DKTK). For the partner…

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Bioinformatics Pipeline Developer – NatureMetrics (Guildford, Surrey)

Job:Bioinformatics Pipeline Developer – NatureMetrics (Guildford, Surrey) 0 I’m reaching the end of my recruitment round, have one more role to come after this (hopefully advertised this week); Applications are invited for a Bioinformatics Pipeline Developer to join an expanding science-based SME. The successful candidate will work closely with other…

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Towards a More Precise and Effective Use of CRISPR

Human imagination is the only limit when it comes to the potential of genetic engineering – especially after the breakthrough of CRISPR technology. A new Danish research project can help refine the method and is a step towards a more precise and effective use of ‘genetic scissors’. “Our study shows…

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Low exonic mapping of RNASeq data to draft genome. Should I suspect poor annotation?

Low exonic mapping of RNASeq data to draft genome. Should I suspect poor annotation? 0 I am working on RNASeq data for DE from a non-traditional organism (Artemia franciscana, a eukaryotic arthropod) whose draft genome was published last year. I should note here that although the genome was assembled with…

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Today’s headlines: Fourth round of Covid vaccines on the cards for autumn; DNA device may unmask Sophie Toscan du Plantier’s killer

New Covid jab programme for all adults is on the cards A new national Covid vaccine programme for all adults is on the way because of a lack of protection against new variants of the virus. Gunman kills three, leaves three critically wounded at Denmark shopping centre Danish police say…

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is scRNA-seq simply better than RNA-seq? : bioinformatics

Sorry if I am completely wrong and ignorant, I just started learning about RNA-seq since I may have to arrange protocols and experiments of RNA sequencing in the future. From what I read, scRNA-seq is an improvement over the bulk analysis of RNA-seq since it sorts the samples by its…

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Bioinformatics Software Market Development Analysis 2022

This report gives a detailed view of the market competitiveness of the Bioinformatics Software market for assessing its market position. It is a collective effort to in conducting global assessment on the Bioinformatics Software industry. This market outlook is primarily focused on the key market aspects like investment opportunities, challenges,…

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Python Project – Essay solutions

   Below is the problem, after you accept the task, I will send you the lecture notes which will help you with this project. And other things you need. Thank youOur competition data on Kaggle are an MNIST replacement, which consists of Japanese characters, and contains the following 2 dataset:Kuzushiji-MNIST…

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Hisat2 – stringtie – deseq2 pipeline for bulk RNA seq

Software official website : Hisat2: Manual | HISAT2 StringTie:StringTie article :Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown | Nature Protocols It is recommended to watch the nanny level tutorial : 1. RNA-seq : Hisat2+Stringtie+DESeq2 – Hengnuo Xinzhi 2. RNA-seq use hisat2、stringtie、DESeq2 analysis – Simple books Basic usage…

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What is AlphaFold? What does it mean for the future of science and humanity? : explainlikeimfive

Alphafold means we can take the “code” of protein structure, which is just the order in which amino acids are arranged in a straight line, and predict the shape of the resulting protein molecule. Alphafold AI allows us to do this much more accurately than we could in the past,…

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Open Rank Bioinformatics Software Engineer I and Bioinformatics Engineer II in Baltimore, MD for University of Maryland, Baltimore

Open Rank Bioinformatics Software Engineer I and Bioinformatics Software Engineer II The Institute for Genome Sciences (IGS), Informatics Resource Center, is recruiting for a Open Rank Bioinformatics Software Engineer I and Bioinformatics Software Engineer II position. This position will be filled as either the Bioinformatics Software Engineer I or II.IGS…

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How to get a job in Bioinformatics

Hi, so I (22F, Indian) just completed my masters program a few months back and I would really like to go into the field of bioinformatics – but I have no idea if a PhD is the only way in or if there are other ways of doing so?I’m a…

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Differing number of reads for read 1 and 2 in fastq’s from a subset bam file

I’m working with paired-end wgs data I downloaded from TCGA. I’m trying to extract the reads that align to a specific region, extract only those reads to two fastq files, one for each pair. Unfortunately, I am getting a different number of reads in both fastq files because some of…

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What is the PPI network?

What is the PPI network? A protein-protein interaction (PPI) network represents a platform by which we have this chance to systematically identify disease-related genes from the relations between genes with similar functions. What is virus host interaction? Definition. Virus–host interactions are the viral and host processes that occur during viral…

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rna seq – Tutorial for the WGCNA: changes in heatmap colours

I am trying to reproduce the results of the R tutorial of the WGCNA package. In section I number 5, when generating the heatmap it is quite similar to the one provided by the pdf but the colours of the heatmap differ from the document. Is it possible to change…

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How to Make Grouped Violinplot with jittered data points in R

In this post, we will learn how to make grouped violin plot with jittered data points on top of it using ggplot2 in R. One of the challenges in making grouped violin or box plots with jittered data points is proper alignment of data points and the underlying plot. In…

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Resolved: Adding a legend to ggplot

Question: I have the below dataset; Player Goals Shots Regan Charles-Cook 10 32 Tony Watt 9 36 Bruce Anderson 8 26 Liam Boyce 8 44 Kyogo Furuhashi 8 31 Alfredo Morelos 8 80 Christian Ramirez 8 41 Liel Abada 7 57 Martin Boyle 7 43 Kevin van Veen 7 45…

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What are and? – Zero to JupyterHub on Kubernetes

Hello,The official Jupyterhub documentation mentions <hub_url> and<hub_ip> in the proxy settings section: jupyterhub/troubleshooting.md at 95de2618a3e021d5f78434969fd70ff10859d372 · jupyterhub/jupyterhub · GitHub. What these <hub_url> and <hub_ip> exactly are? <hub_ip> is the IP of hub service, hub pod or something else? if I use e.g. domain “my-domain com”, then <hub_url> is “my-domain com/hub”?…

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rstudio – R Package Check(): “All declared Imports should be used”

I’m writing a small package of functions for myself only (not CRAN; on GitHub, but not public), and developing locally on the computer. Mostly this is me being a newbie at R and learning to write first package. I’m using devtools and after load_all() and check(), I have been getting…

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Corps of Engineers Awards $1.068 Billion of the New Lock at the Soo Phase 3 Contract

Over one billion dollars has been awarded to the New Lock at the Soo project – thanks to the U.S. Army Corps of Engineers. The Corps’ Detroit District says they anticipate the third phase to begin this summer. Phase 1 is nearly complete and phase 2 is scheduled for completion…

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Economical and Efficient Protocol for Isolating and Culturing Bone Marrow-derived Dendritic Cells from Mice

Here, we present an economical and efficient method to isolate and generate high-purity bone marrow-derived dendritic cells from mice after 7 days of culture with 10 ng/mL GM-CSF/IL-4. Economical and Efficient Protocol of Isolating and Generating Bone Marrow-derived Dendritic Cells from Mouse. Procedures involving animal subjects have been approved by…

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Plant-based Expression Systems are Gaining Mainstream Advantage

Industry adoption of plant-made biologics remains slow, but plant-based technology gains an advantage by mainstream exposure. While Chinese hamster ovary (CHO) cells are the workhorse of biologics production, other cell expression systems are starting to gain ground, such as plant-based expression systems. Though an older technology in and of itself,…

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Protein and functional isoform levels and genetic variants of the BAFF and APRIL pathway components in systemic lupus erythematosus

Pons-Estel, G. J., Ugarte-Gil, M. F. & Alarcón, G. S. Epidemiology of systemic lupus erythematosus. Expert Rev. Clin. Immunol. 13, 799–814 (2017). CAS  PubMed  Article  Google Scholar  Tsokos, G. C. Systemic lupus erythematosus. N. Engl. J. Med. 365, 2110–2121 (2011). CAS  PubMed  Article  Google Scholar  Bossen, C. & Schneider, P….

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Trouble using Human_GeCKOv2_Library_combine.csv to run MAGeCK

Trouble using Human_GeCKOv2_Library_combine.csv to run MAGeCK 0 Hi,everyone. When I used MAGeCK count command to deal with my CRISPR screening results,I found that there are 1000 non-target-sgRNAs in my download Human_GeCKOv2_Library_combine.csv file,whether I should remove them or not before using the count command?Could anyone tell me?Because if I don’t remove…

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New Single-Cell ‘Total’ RNA-seq Method Promises More Comprehensive Transcriptome View

This story has been updated to correct information about methods developed by Hao Wu.  NEW YORK – A new method for single-cell RNA sequencing may provide a triple threat: high sensitivity, full-length coverage of RNA, and high throughput. The researchers behind the method — dubbed “vast transcriptome analysis of single cells…

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What does the part “mature miRBase miRNAs not detected by miRDeep2” actually mean in a miRDeep2 analysis? Should those hits be included in results?

What does the part “mature miRBase miRNAs not detected by miRDeep2” actually mean in a miRDeep2 analysis? Should those hits be included in results? 0 After completion of a miRDeep2 analysis, the results are generated in three different parts, viz., 1) novel miRNAs predicted by miRDeep2, 2) mature miRBase miRNAs…

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Alternatives and detailed information of Prsice

PRSice (pronounced ‘precise’) is a software package for calculating, applying, evaluating and plotting the results of polygenic risk scores (PRS). PRSice can run at high-resolution to provide the best-fit PRS as well as provide results calculated at broad P-value thresholds, illustrating results corresponding to either, can thin SNPs according to…

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Rsubread featurecounts

Rsubread featurecounts 1 Hi there, I seem to be getting this error when reading in a BAM file which was generated by PBMM2 align on pacbio data. I have tried to google the error message but there are no results. I wonder if anyone has ideas on what the error…

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autopkgtest needs update for new version of python-decorator)

Hi, I’d like to point out to this serious bug. Steffen, would you mind koordinating (not doing alone) an upgrade of the qiime infrastructure to make sure everything will go smoothly? Kind regards Andreas. Am Thu, Jun 30, 2022 at 11:30:21AM +0200 schrieb Paul Gevers: > Source: qiime > Version:…

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Unexprected Ensembl-vep results

Unexprected Ensembl-vep results 0 Hi.I got a VCF from an individual that shows symptoms of a known disease with known mutations. I run it with Ensembl-vep, expecting to find some of those mutations in the results, yet, all the consequences in the results are “intergenic-variant”.The command I used was: –cache…

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Single-cell and bulk transcriptome sequencing identifies two epithelial tumor cell states and refines the consensus molecular classification of colorectal cancer

Cell-type annotation scRNA-seq data were filtered to discard low-quality cells and doublets (Supplementary Fig. 1, Extended Data Fig. 1 and Methods). Supervised clustering (Reference Component Analysis v2 (RCA2)) at low resolution grouped cells into 11 major cell types (Extended Data Fig. 1). To identify epithelial cell subtypes, we initially analyzed…

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Burning Rock Receives CE Mark

SHANGHAI, June 1, 2022 /PRNewswire/ — Burning Rock Biotech Limited (NASDAQ: BNR, the “Company” or “Burning Rock”) announced that it has received CE marking for its OverC™ Multi-Cancer Detection Blood Test manufactured in both the US and China facilities (Identification Number: DE/CA20/01-IVD-Luxuslebenswelt-523/22, DE/CA20/01-IVD-Luxuslebenswelt-524/22). OverC™ Multi-Cancer Detection Blood Test is a…

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Bioconductor – BSgenome.Btaurus.UCSC.bosTau9.masked (development version)

DOI: 10.18129/B9.bioc.BSgenome.Btaurus.UCSC.bosTau9.masked     This is the development version of BSgenome.Btaurus.UCSC.bosTau9.masked; for the stable release version, see BSgenome.Btaurus.UCSC.bosTau9.masked. Full masked genome sequences for Bos taurus (UCSC version bosTau9) Bioconductor version: Development (3.16) Full genome sequences for Bos taurus (Cow) as provided by UCSC (genome bosTau9) and stored in Biostrings objects….

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The necessity of ultrapure water in cell culture

Sponsored Content by SartoriusJun 30 2022Reviewed by Alex Smith When experimenting with cell cultures, contaminants in water can come in a number of different types, such as yeasts, molds or bacteria. Typically, these contaminants can be observed using optical microscopy or by the eye. Contamination from alternative biological agents or…

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ETH Zurich AI Researchers Introduce ‘tntorch’: a PyTorch-Powered Tensor Learning Python Library That Supports Multiple Decompositions Under a Unified Interface

Tensors are an effective method for handling and representing multidimensional data arrays. However, they have a limitation in terms of storage and computation. Tensor decompositions are crucial in machine learning because they factorize the weights of neural networks. This research introduces tntorch, an open-source python package for tensor learning that…

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Escherichia coli K-12 substr. MG1655 sdsN

BioCyc ID:TU0-42620 Local Context (not to scale — see Genome Browser for correct scale) Transcription Unit Notes: Click on a binding site (if any) to navigate to the page for its transcription factor. Click on a gene to navigate to its gene page. Roll the mouse over any element in…

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Lh3 Minimap2 Issues

Issue Title State Comments Created Date Updated Date Mapping reads against multi references. Any proposition? open 0 2022-06-28 2022-06-30 Inversion between tandem repeats yields misalignment closed 1 2022-06-21 2022-06-30 use minimap2 to extract mitochondrial reads from genome assembly open 0 2022-06-20 2022-06-30 Asking for #301 to be reopened closed 0…

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Final Opinion on the safety of breast implants in relation to ALCL

Final Opinionon the safety of breast implants in relation to anaplastic large cell lymphoma (BIA-ALCL) The European Commission and its Scientific Committee on Health, Environmental and Emerging Risks (SCHEER) publish the Final Opinion on the safety of breast implants in relation to anaplastic large cell lymphoma (BIA-ALCL). Final Opinion Following…

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New study investigates the epigenetic drift of time passing

A new research paper was published in Aging (Aging-US) on the cover of Volume 14, Issue 12, entitled, “Time makes histone H3 modifications drift in mouse liver.” Aging is known to involve epigenetic histone modifications, which are associated with transcriptional changes, occurring throughout the entire lifespan of an individual. “So…

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PCR duplicates in FFPE RNASeq

PCR duplicates in FFPE RNASeq 0 Dear all, I am working on 100 RNASeq data generated with a stranded protocol and a Novaseq run. I need to perform variant calling on these samples, however I am facing some problem. I have not access to DNA so exome/targeted amplification is not…

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Turncoat T cells are at the core of multiple sclerosis and other inflammatory central nervous system disorders

scRNAseq replicates. CD45.1+ P14 cells were adoptively transferred into adult CD45.2+ GP or GFAP:GP mice 24h before i.c. infection with rLCMV-GP33. At least six weeks later, mice were treated with antiCD8a depleting antibody or isotype control. One week after depletion, mice were treated with TAM i.p. for four consecutive days…

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Genome-wide siRNA screening reveals a number of host receptors for the binding of human intestine commensal Bifidobacterium bifidum

On this research we developed a high-throughput siRNA silencing assay to display proteins which may function host floor receptors for bacterial binding and uncovered 4 receptors for the commensal B. bifidum. Bifidobacteria are members of regular intestine microbiota and they’re considered health-promoting micro organism and for that they’re broadly used…

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Immune Infiltration and N(6)-Methyladenosine ncRNA Isoform Detection in Acute Lung Injury

Acute lung injury (ALI) is a severe form of sepsis that is associated with a high rate of morbidity and death in critically ill individuals. The emergence of ALI is the result of several factors at work. Case mortality rates might range from 40% to 70%. Researchers have discovered that…

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Common gene used to profile microbial communities — ScienceDaily

Part of a gene is better than none when identifying a species of microbe. But for Rice University computer scientists, part was not nearly enough in their pursuit of a program to identify all the species in a microbiome. Emu, their microbial community profiling software, effectively identifies bacterial species by…

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circRNA: Regulatory factors and potential therapeutic targets in inflammatory dermatoses

Review doi: 10.1111/jcmm.17473. Online ahead of print. Affiliations Expand Affiliations 1 Shanxi Key Laboratory of Stem Cells for Immunological Dermatosis, Institute of Dermatology, Taiyuan Central Hospital of Shanxi Medical University, Taiyuan, China. 2 Huashan Hospital, Shanghai Medical College, Fudan University, Shanghai, China. Item in Clipboard Review Ruifeng Liu et al. J…

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scikit learn – python clustering package that can cluster based in distance matrix but also predict new row (without new clustering/distance matrix)

I am aware of various (sklearn) clustering algorithm that work with distance matrices – e.g. produced via a proximity matrix coming from a random forest (some clumsy reproducible code below). Is there any clustering algorithm (working with distance matrix), where the fitted cluster model (e.g. cluster_model below) can produce the…

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A fast, highly sensitive, point-of-care RT-LAMP and CRISPR/Cas12a assay for the detection of SARS-CoV-2 & More Breaking News

  In a latest research posted to the Research Square* preprint server, researchers used isothermal amplification with clustered often interspaced brief palindromic repeats (CRISPR)-Cas12a to detect extreme acute respiratory syndrome coronavirus 2 (SARS-CoV-2).  Study: Rapid, multiplex detection of SARS-CoV-2 utilizing isothermal amplification coupled with CRISPR-Cas12a. Image Credit: creativeneko/Shutterstock Background To…

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BMP-6 and SMAD4 gene expression is altered in cumulus cells from women with endometriosis-associated infertility

Introduction Oocyte competence and quality depend on communication between the oocyte and the cumulus and theca cells. In the preantral phase, the members of the transforming growth factor β (TGF-β) superfamily are responsible for this communication and play an important role in folliculogenesis. Members of the TGF-β superfamily are related…

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This startup wants you to have a personal stem cell stash

Salvatore Viscomi always wanted to be involved in a science fiction project — and he found one. Viscomi is the chief medical officer of GoodCell, a Massachusetts-based startup where people can bank their own white blood cells with a simple blood draw. Labs can then tweak those cells to become…

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Harrison’s rule corroborated for the body size of cleptoparasitic cuckoo bees (Hymenoptera: Apidae: Nomadinae) and their hosts

Fisher, D. O. & Dickman, C. R. Body size-prey size relationships in insectivorous marsupials: Tests of three hypotheses. Ecology 74, 1871–1883 (1993). Article  Google Scholar  Woodward, G. & Hildrew, A. G. Body-size determinants of niche overlap and intraguild predation within a complex food web. J. Anim. Ecol. 71, 1063–1074 (2002)….

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Precision medicine: Sustained response to erdafitinib in FGFR2-mutant, multiply recurrent ameloblastoma

Background: Ameloblastoma imposes significant morbidity and high-recurrence rates following surgery and radiation therapy. Although 89% of cases harbor oncogenic mutations, the role of targeted therapy is undefined. Case: We describe a case of a 40-year-old male with multiply recurrent, locally invasive ameloblastoma of the posterior maxillary ridge. The tumor was…

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Ubuntu Manpage: alleleCounts.pl – Generate tab seperated file with allelic counts and depth for each

Provided by: liballelecount-perl_4.2.1-1_all NAME alleleCounts.pl – Generate tab seperated file with allelic counts and depth for each specified locus. SYNOPSIS Where possible use the C version for large data (it’s also more configurable). alleleCounts.pl Required: -bam -b BAM/CRAM file (expects co-located index) – if CRAM see ‘-ref’ -output -o Output…

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BGmix: Top 12 Products from Women’s Handbags, Purses & Wallets Brand

© FINDTHISBEST. 2022 FTB. All rights reserved. When you visit or interact with our sites, services or tools, we or our authorised service providers may use cookies for storing information to help provide you with a better, faster and safer experience and for marketing purposes. As an Amazon Associate we…

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Xenazine (Tetrabenazine) – Oral: Uses, Side Effects, Dosages

What Is Xenazine? Xenazine (tetrabenazine) is a medication option used to treat abnormal and extra muscle movements in people with Huntington’s disease (HD). Xenazine is a vesicular monoamine transporter 2 (VMAT2) inhibitor. It’s thought to work by preventing VMAT2 from moving monoamines (naturally occurring brain chemicals) into vesicles. Neurons (nerve…

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[slurm-users] “Plugin is corrupted” message when using drmaa / debugging libslurm

On 28/06/2022 23:14, Chris Samuel wrote: > On 28/6/22 12:19 pm, Jean-Christophe HAESSIG wrote: Hi, Yes I also found it and that’s where I saw the detailed debug3 & debug4 calls. > it’s when it’s checking it can load the plugin and not hit any > unresolved library symbols. The…

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Genetic characterization of two G8P[8] rotavirus strains isolated in Guangzhou, China, in 2020/21: evidence of genome reassortment | BMC Infectious Diseases

Mokomane M, Kasvosve I, Melo Ed, Pernica JM, Goldfarb DM. The global problem of childhood diarrhoeal diseases: emerging strategies in prevention and management. Ther Adv Infect Dis. 2018;5(1):29–43. PubMed  Google Scholar  Organization WH. Rotavirus vaccines: WHO position paper–July 2021. Weekly Epidemiol Rec. 2021;96(28):301–219. Google Scholar  Bucardo F, Reyes Y, Svensson…

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ARCH= -gencode arch=compute for NX: – Jetson Xavier NX

hi,i am working on jetson Xavier NX box,i updated to jetpack 5.0.1 and deepstream6.1 right now.before i setup ARCH= -gencode arch=compute 72 for NX to train some models.but i cmake another file yesterday it detected arch-gencode 75!so i am confuse right now, should i setup 72 or 75 for jetson…

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2023 Hyundai Ioniq 6, aero-friendly EV revealed

The Hyundai Ioniq 6 electric sedan has finally been revealed in full after a long-running teaser campaign. is it the Korean marque’s Tesla Model 3 alternative? This second model in the new Hyundai Ioniq family, after the far more angular Ioniq 5 crossover-hatch, places aerodynamic efficiency at its very heart,…

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Robotic Left Hepatectomy using Indocyanine Green Fluorescence Imaging for an Intrahepatic Complex Biliary Cyst

Robotic liver surgery has gained more acceptance as a feasible, safe, and effective procedure for the treatment of both benign and malignant indications. However, robotic left hepatectomy is still technically demanding. We describe our surgical technique of a robotic left hepatectomy using indocyanine green fluorescence imaging for a large biliary…

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Accounting for small variations in the tracrRNA sequence improves sgRNA activity predictions for CRISPR screening

%PDF-1.4 % 3265 0 obj > endobj 3658 0 obj >stream 2022-06-27T16:11:20Z 2022-06-28T22:18:05-07:00 2022-06-28T22:18:05-07:00 macOS Version 11.6.7 (Build 20G630) Quartz PDFContext application/pdf Accounting for small variations in the tracrRNA sequence improves sgRNA activity predictions for CRISPR screening uuid:010579fc-1dd2-11b2-0a00-7008275d6100 uuid:01057a00-1dd2-11b2-0a00-aa0000000000 endstream endobj 6 0 obj > endobj 2 0 obj > endobj…

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Kitty Chen 2021 Preview H2122 Wedding Dress

Photographer Credit: Lo Vazquez | @Lovazquezphotography $1,600 USD SAVE 35% Retail Price: $2,478 USD Save Amount: $878 USD Listing Number: 442987 Designer: Kitty Chen Condition: Used Color Family: Color: Year Purchased: 2021 Label size: 12 Street size:  10 Bust: 0 Waist: 0 Hips: 0 Height: Photographer Credit: Lo Vazquez |…

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A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses

Zaremba-Niedzwiedzka, K. et al. Asgard archaea illuminate the origin of eukaryotic cellular complexity. Nature 541, 353–358 (2017). CAS  PubMed  Article  Google Scholar  Williams, T. A., Cox, C. J., Foster, P. G., Szöllősi, G. J. & Embley, T. M. Phylogenomics provides robust support for a two-domains tree of life. Nat. Ecol….

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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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Terminator Upgrades Single-Cell RNA Sequencing Technology

Japanese scientists have developed a new method for DNA amplification and sequencing that improves the accuracy of single-cell RNA sequencing (scRNA-seq). The new method called TAS-Seq uses a terminal transferase enzyme that amplifies and sequences DNA complementary to mRNA (cDNA) in solid phase on a nanowell/magnetic bead-based cell isolation platform….

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Addgene: lentiCRISPR – CTRL sgRNA Citations

Plasmid Article: Identification and characterization of essential genes in the human genome.Wang T, Birsoy K, Hughes NW, Krupczak KM, Post Y, Wei JJ, Lander ES, Sabatini DM Science. 2015 Oct 15. pii: aac7041. PubMed Journal Articles Citing lentiCRISPR – CTRL sgRNA Articles HER2 + breast cancers evade anti-HER2 therapy via…

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Left and right DataArray objects are not close

Source: python-xarray Version: 2022.06.0~rc1-1 Severity: serious User: debi…@lists.debian.org Usertags: regression Dear maintainer(s), With a recent upload of python-xarray the autopkgtest of python-xarray fails in testing when that autopkgtest is run with the binary packages of python-xarray from unstable. It passes when run with only packages from testing. In tabular form: …

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Pytorch Foundation

pytorch yes Facebook Developed deep learning library . Details visible Official website . For the convenience of management , Usually in Anaconda or miniconda Create a new virtual environment installation in pytorch. New virtual environment (MacOS) Method 1 : direct Anaconda Navigator Install in stay Navigator>Environments Create a new environment…

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Getting the best of RNA-Seq

Forum:Getting the best of RNA-Seq 0 This is not a banal discussion. I am facing some problems with the analysis of DE genes in mouse. Most methods of analysis of DE genes must face two considerations or challenges. The first needs to take into consideration the existence and the different…

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Joint scRNAseq of B and T cells

Start Current SNIC Small Storage Projects SNIC 2022/23-318 Joint scRNAseq of B and T cells SUPR uses JavaScript for certain functions. We cannot guarantee that you will be able to use the system with JavaScript disabled. Primary Classification: 10605: Immunology (medical to be 30110 and agricultural to be 40302) Allocation…

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extract rRNA/tRNA and other ncRNA ratio in a table from small RNA-seq

extract rRNA/tRNA and other ncRNA ratio in a table from small RNA-seq 0 Hi all, I have some small RNA-seq libraries from some plants. I downloaded ncRNA from Ensemble Plants as I don’t know how to use the Rfam database. How could I extract the rRNA/tRNA and other ncRNA ratios…

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Researchers discover giant bacteria in mangrove ecosystems

Researchers at Lawrence Berkeley National Laboratory, or Berkeley Laboratory, have discovered giant bacteria in Guadeloupe’s marine systems, which are remarkably unusual because they can be seen with the naked eye. According to a Berkeley Lab press release, the study was conducted in collaboration with the University of the Antilles in…

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python – Scikit-learn LogisticRegression overparametrised? Option for setting one of the K coefficient vectors to zero?

Suppose we run logistic regression on K classes. Unsurprisingly, sklearn.linear_model.LogisticRegression gives you a set of coefficients (or weights, stored in the attribute LogisticRegression.coef_) that has shape (K, D) where D is the input dimensionality of the data. (Actually I would rather it had shape (D, K) but whatever.) However, we…

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Induzierte pluripotente Stammzellen (IPSCs) Marktanteil, Analyse der wichtigsten Wettbewerber, Prognose bis 2028

Der Induzierte pluripotente Stammzellen (IPSCs) Market“-Forschungsbericht umfasst umfassende Daten zu vorherrschenden Trends, Treibern, Wachstumschancen und Einschränkungen, die die marktverändernden Aspekte der globalen Industrie variieren können. Dieser Bericht bietet eine eingehende Analyse der Marktsegmentierung, die Produkte, Anwendungen und geografische Analysen enthält. Der globale Induzierte pluripotente Stammzellen (IPSCs)-Marktbericht bietet eine genaue Beobachtung…

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Three families of Asgard archaeal viruses identified in metagenome-assembled genomes

Liu, Y. et al. Expanded diversity of Asgard archaea and their relationships with eukaryotes. Nature 593, 553–557 (2021). CAS  PubMed  Google Scholar  Dombrowski, N., Teske, A. P. & Baker, B. J. Expansive microbial metabolic versatility and biodiversity in dynamic Guaymas Basin hydrothermal sediments. Nat. Commun. 9, 4999 (2018). PubMed  PubMed…

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Dog lymphoma, new genetic mutations discovered. Hopes for man too

TURIN – Large B cell lymphoma is one of the most frequent cancers in dogs and is considered a good model for the study of the same pathology in humans. The study was published in the prestigious Nature journal, Lab Animal. Researchers of a European team coordinated by the professor…

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GitHub – ProbstLab/viromics

GitHub – ProbstLab/viromics This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository. You can’t perform that action at this time. You signed in with another tab or window. Reload to refresh your session. You signed out in another…

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Ubuntu Manpage: bamfillquery – fill query sequences into BAM files

Provided by: biobambam2_2.0.179+ds-1_amd64 NAME bamfillquery – fill query sequences into BAM files SYNOPSIS bamfillquery [options] <in.bam queries.fasta >out.bam DESCRIPTION bamfillquery reads a SAM/BAM/CRAM file and a FastA file, copies the sequences found in the FastA file into the query sequence field of the SAM/BAM/CRAM file and writes the resulting data…

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Tempest to Present at the Jeff

SOUTH SAN FRANCISCO, Calif., June 06, 2022 (GLOBE NEWSWIRE) — Tempest Therapeutics, Inc. ( TPST), a clinical-stage oncology company developing first-in-class1 therapeutics that combine both targeted and immune-mediated mechanisms, today announced that management will present at the Jefferies Healthcare Conference on Wednesday, June 8, 2022 at 10:30 a.m. ET. To…

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Index of /goldenPath/macEug2/vsHg38/reciprocalBest

This directory contains reciprocal-best netted chains for macEug2-hg38. – macEug2.hg38.rbest.net.gz: macEug2-referenced recip.best net to hg38. – macEug2.hg38.rbest.chain.gz: chains extracted from the recip.best net. These can be passed to the liftOver program to translate coords from macEug2 to hg38 through the recip.best net. – hg38.macEug2.rbest.net.gz: hg38-referenced recip.best net. – hg38.macEug2.rbest.chain.gz: recip.best…

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mpi – slurm can’t execute srun

slurm cannot run srun -n 1 /home/user/share/test/hello.o is ok rpi40000: 0 of 1 but srun -n 2 /home/user/share/test/hello.o is error. srun: error: slurm_receive_msgs: Socket timed out on send/recv operation srun: error: Task launch for StepId=53.0 failed on node rpi40001: Socket timed out on send/recv operation srun: error: Application launch failed:…

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Root70 – Genome – Assembly

##Genome-Annotation-Data-START## Annotation Provider::NCBI Annotation Date::10/29/2015 14:17:23 Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline Annotation Method::Best-placed reference protein set; GeneMarkS+ Annotation Software revision::3.0 Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region Genes::4,587 CDS::4,486 Pseudo Genes::46 rRNAs::1, 1, 1 (5S, 16S, 23S) complete rRNAs::1, 1, 1 (5S, 16S, 23S) partial rRNAs:: tRNAs::51 ncRNA::1 ##Genome-Annotation-Data-END##…

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UniProt: A0A6I9ZUN5_ACIJB

ID A0A6I9ZUN5_ACIJB Unreviewed; 234 AA. AC A0A6I9ZUN5; DT 07-OCT-2020, integrated into UniProtKB/TrEMBL. DT 07-OCT-2020, sequence version 1. DT 25-MAY-2022, entry version 6. DE SubName: Full=tumor necrosis factor ligand superfamily member 8 {ECO:0000313|RefSeq:XP_014931799.1}; GN Name=TNFSF8 {ECO:0000313|RefSeq:XP_014931799.1}; OS Acinonyx jubatus (Cheetah). OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Laurasiatheria;…

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Genetic diversity of loquat (Eriobotrya japonica) revealed using RAD-Seq SNP markers & More Science News

Our research analyzed the genetic diversity of 95 cultivars and strains of loquat collected from everywhere in the world. On the premise of the evaluation of the inhabitants construction of 19 Chinese loquat cultivars and strains by RAD-Seq, Hubei Province in China has been recommended as the middle of origin…

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Genetic Divergence between auxis thazard and a.rochei based on pcr-rflp analysis of mtdna d-loop region

Tunas of genus Auxis are commercially and ecologically important fish of family Scombridae. There is currently no information concerning the genetic divergence between A. thazard and A. rochei. Therefore, a study was conducted to estimate the degree of genetic divergence between two species based on PCR-RFLP analysis of D -loop…

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Discover the largest bacteria in the world

An unprecedented discovery. Can be held with tweezers: the largest bacteria of the world, 5,000 times larger than its peers and more complex in structure, was discovered in GuadeloupeAccording to a study published Thursday in the journal Science. “Thiomargarita magnifica” measures up to two centimeters, looks like an “eyelash” and…

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Ubuntu Manpage: samtools targetcut – cut fosmid regions (for fosmid pool only)

Provided by: samtools_1.13-2_amd64 NAME samtools targetcut – cut fosmid regions (for fosmid pool only) SYNOPSIS samtools targetcut [-Q minBaseQ] [-i inPenalty] [-0 em0] [-1 em1] [-2 em2] [-f ref] in.bam DESCRIPTION This command identifies target regions by examining the continuity of read depth, computes haploid consensus sequences of targets and…

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Unexpected behaviour during hybrid Monte-Carlo simulations (ReaxFF) – LAMMPS Beginners

T.Dem June 25, 2022, 5:41pm #1 Dear LAMMPS users, I am trying to run Monte Carlo simulations using reaxff to study the oxygen coverage on a Pt nanoparticle. I defined my oxygen reservoir using the chemical potential definition for a perfect gas. Initially, the system is very small (350 atoms)…

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Error when adding new residue to hdb (CHARMM36) – User discussions

dom June 26, 2022, 2:05am #1 GROMACS version:2022.2GROMACS modification: No I am adding a new protein residue to the CHARMM36 forcefield (July 2021). As per the instructions in the GROMACS manual (“Adding a Residue to a Force Field”), I modified residuetypes.dat, aminoacids.rtp, and aminoacids.hdb with the new residue entry. It…

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Hubble captures a galactic menagerie

Credit: ESA/Hubble & NASA, H. Ebeling; Acknowledgment: L. Shatz The NASA/ESA Hubble Space Telescope captured this massive galaxy cluster, called Abell 1351, with its Wide Field Camera 3 and Advanced Camera for Surveys. Abell 1351 lies in the constellation Ursa Major in the northern hemisphere. This image is filled with…

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Ubuntu Manpage: Bio::Map::OrderedPosition – Abstracts the notion of a member of an ordered list of

Provided by: libbio-perl-perl_1.7.2-2_all NAME Bio::Map::OrderedPosition – Abstracts the notion of a member of an ordered list of markers. Each marker is a certain distance from the one in the ordered list before it. SYNOPSIS use Bio::Map::OrderedPosition; # the first marker in the sequence my $position = Bio::Map::OrderedPosition->new(-order => 1, -positions…

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Bioconductor – TrajectoryGeometry (development version)

DOI: 10.18129/B9.bioc.TrajectoryGeometry     This is the development version of TrajectoryGeometry; for the stable release version, see TrajectoryGeometry. This Package Discovers Directionality in Time and Pseudo-times Series of Gene Expression Patterns Bioconductor version: Development (3.16) Given a time series or pseudo-times series of gene expression data, we might wish to…

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Molecular Modeling Software for Chemistry Market Research With ChemDoodle, ChemAxon, Hypercube, ACD/ChemSketch, Avogadro

“ A2z Market Research announces the release of the report ‘ Molecular Modeling Software for Chemistry Market Research Report by Category, form, Product, Type, End-User, Region – Global Forecast to 2027. The primary drivers of this growth are the increasing need for market information and sustainability of key trends.’…

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SampleResume2.docx – INSERT PHOTO HERE | +91 | |

<YOUR NAME><Current Designation> | +91 <mobile number><Linkedin profile link> | <github link> | <kaggle profile link>SUMMARY<A Senior Data Analyst with almost X years of experience executing data-drivensolutions to increase efficiency………………accuracy……………….…to complexbusiness problems…………………………>EXPERIENCE<Company Name>, <location>– <Designation>November 2017 – PRESENT<Here mention what you have accomplished in your job backed by data>●<EXAMPLE: Involved…

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2165: Symmetric Pentamer Design with AlphaFold Predictions

2165: Symmetric Pentamer Design with AlphaFold Predictions Status: Active Name: 2165: Symmetric Pentamer Design with AlphaFold Predictions Status: Active Created: 06/24/2022 Points: 100 Expires: 07/01/2022 – 23:00 Difficulty: Intermediate Description: Design a symmetric protein pentamer, with 5 identical…

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A*STAR RESEARCH ENTITIES hiring #SGUnitedJobs Bioinformatics Specialist, Laboratory of Computational Cancer Genomics, GIS in Singapore, Singapore

Why do cancer treatments work in some patients, but not in others? How can we use genomics data to discover new drug targets? We seek an energetic and team-oriented Data Scientist with expertise in software development (especially web-based data visualisation) to join a multi-disciplinary effort to discover new biomarkers and…

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Postdoctoral Researcher in Computational Biology at Karolinska Institute, Sweden 2022

Postdoctoral Researcher in Computational Biology is available for doctoral degree candidates in Bioinformatics, Computer science, Mathematics, Biostatistics, Neuroscience, or similar field at the Department of Clinical Neuroscience, Karolinska Institute, Sweden 2022 Qualification Details Qualified to be employed as a postdoctor is one who has obtained a doctorate or has equivalent…

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A*STAR RESEARCH ENTITIES hiring #SGUnitedJobs Bioinformatics Specialist, Lab of Cancer Epigenetic Regulation, GIS in Singapore, Singapore

The Laboratory of Cancer Epigenetic Regulation, helmed by GIS Executive Director Patrick Tan, is seeking a Bioinformatician to join a new multi-institutional effort targeting the genetic basis of cancer to create novel therapies and diagnostics. Led by an award-winning thought leader in the field of Asian gastrointestinal cancer research with…

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Research Technician (Parental Leave Cover) At European Molecular Biology Laboratory (EMBL)

About the team/job EMBL Barcelona is a new research unit focusing on Tissue Biology and Disease Modelling. We aim to go beyond the molecular and cellular scale, integrating gene circuits with a tissue-level quantitative understanding of tissues and organs, both healthy and diseased. We are seeking to recruit a research…

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