Are package downgrades a necessary evil in Conda?

Are package downgrades a necessary evil in Conda? 1 I am just trying to get my head around using conda environments. I created a conda environment for a project containing plink2, plink, R and bcftools. When I installed plink, using mamba install -n autozygosity -c conda-forge plink, I got the…

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mRNA vaccines against COVID-19 don’t modify humans, and don’t make them patentable or owned by any entities

CLAIM “if a human is injected with a GMO it becomes a patented piece of property from the government”, “they take away all your rights with mRNAs” DETAILS Factually inaccurate: U.S. law prohibits the patenting of human beings. Furthermore, mRNA vaccines don’t modify the human genome. Inadequate support: The 2013…

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Multiplexed genome editing by in vivo electroporation of Cas9 ribonucleoproteins effectively induces endometrial carcinoma in mice

doi: 10.1002/ijc.34342. Online ahead of print. Affiliations Expand Affiliations 1 Laboratory of Genome Science, Biosignal Genome Resource Center, Institute for Molecular and Cellular Regulation, Gunma University, Gunma, Japan. 2 Division of Integrated Oncology Research, Gunma University Initiative for Advanced Research (GIAR), Gunma, Japan. 3 Faculty of Veterinary Medicine, Kitasato University…

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Research Engineer, Plant Nanotechnology job with NATIONAL UNIVERSITY OF SINGAPORE

Job Description Positions are available for Research Engineers or Research Assistants in the Lew Lab led by Assistant Professor Tedrick Thomas Salim LEW at the Department of Chemical & Biomolecular Engineering at the National University of Singapore (NUS). In our lab, we combine approaches from nanotechnology, engineering, chemistry and plant biology to engineer new…

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Part-Time Lecturer, Science Courses for Bioinformatics Graduate Programs job with Northeastern University

Part-Time Lecturer, Science Courses for Bioinformatics Graduate Programs About the Opportunity About the Opportunity Responsibilities include the following: review and learn key teaching points within existing instructor guides; be willing to support high-quality teaching and standards through preparation of lectures based on course materials provided; facilitate rich respectful debates and…

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CRISPR Shows Promise for Hereditary Angioedema in First-in-Human Trial

LOUISVILLE, Ky. — The future medical promise of CRISPR/Cas9 gene-editing appears to be a present-day reality for a small group of patients with the rare genetic condition known as hereditary angioedema (HAE). Interim results reported here from a phase I/II study involving 10 HAE patients showed a single infusion of…

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Obtaining directionality of pathways

Obtaining directionality of pathways 0 I am attempting to use R to extract biological pathway information from several different online databases (specifically KEGG, Wikipathways and Reactome) and use that information in a larger project I am working on where I am attempting to gauge levels of pathway functionality. An important…

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India producing medical devices at 1/3rd world price, says Union Minister Jitendra Singh

New Delhi [India], November 16 (ANI): Union Minister for Science and Technology Jitendra Singh on Tuesday said India is among the top five countries in the world manufacturing life-saving high-risk medical devices but the cost of our devices is about one-third of those manufactured by the other four countries. Addressing…

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Research Associate, Bioinformatics (Cancer Science Institute, NUS) job with NATIONAL UNIVERSITY OF SINGAPORE

Job Description A Bioinformatics position is available immediately at the Cancer Science Institute (a part of The National University of Singapore) in the laboratory of Dr. Sriram Sridharan. The research will focus in the broad area of replication stress, DNA damage and genome integrity.  This is an exciting opportunity to…

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Scientific Manager – Immunology (Nanostring, Exome, RNA, CHIP) job with University of Texas MD Anderson Cancer Center

The Immunology department at MD Anderson Cancer Center seeks to determine the fundamental cellular and molecular mechanisms of a wide range of processes by which the body recognizes and eliminates pathogens and use these findings to unleash the patient’s own immune system against previously treatment-resistant cancers. Treating the immune system…

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Extra-hematopoietic immunomodulatory role of the guanine-exchange factor DOCK2

Cell isolation, reprogramming and culture Approval was obtained for human cell and tissue sample collection and genetic reprogramming from the Institutional Review Board (protocols 19–252, 18–243, 21–060, 19–284 and 415-E/1776/4-2014, Ethics Committee of the province of Salzburg). Adult samples were collected in accordance with the Declaration of Helsinki after written…

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Collapse multifasta file by specific chromosome names

Collapse multifasta file by specific chromosome names 1 I have a multicast file with unique identifiers (‘SUBJECT.1’, ‘SUBJECT.2’ etc) like this: >SUBJECT.1.1:1203-2742(+) AAATTT >SUBJECT.1:354-700(+) CCCGGG >SUBJECT.2:789-2000(+) GGGCCC >SUBJECT.2:2012-2742(+) TTTAAA how would I extract every line that’s associated to each unique identifier and concatenate them together to form an output file…

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

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

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Bioinformatics Scientist Job – Karkidi

Experience 2-4 year Salary $170,000-$180,000 Location San Francisco, CA, USA Job Function Bioinformatics Scientist Industry Information Technology Qualification Degree in Computer Science, PhD Degree, Degree in Bioinformatics, Degree in Computational Biology, Degree in Computational Science, Degree in Biomedical Engineering Key Skills Bioconductor, CRISPR technology, Data science techniques, Large data sets,…

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Postdoc position Infectious Disease Epidemiology

The lab of professor Moradigaravand at KAUST has an opening for one postdoctoral fellowship in Bioinformatics (postdoc.kaust.edu.sa), as part of the KAUST Smart Health Initiative, to investigate the genetic basis of key clinical features of bacterial infections. This position suits recent PhDs, MD/PhDs, with a career interest in computational biology,…

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Senior Associate Scientist, Bioinformatics at Pfizer in Pearl River, NY 10965

**Senior Associate Scientist, Bioinformatics -Viral Vaccines R&D** **Why Patients Need You** Pfizer’s purpose is to deliver breakthroughs that change patients’ lives. Research and Development is at the heart of fulfilling Pfizer’s purpose as we work to translate advanced science and technologies into the therapies and vaccines that matter most. Whether…

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New study finds that CRISPR/Cas9 leads to unexpected genomic changes

Credit: Unsplash/CC0 Public Domain The widely used gene scissor (CRISPR/Cas) can modify the genetic content in cells to study the molecular roles of genes and has gained great clinical relevance in gene therapy to treat genetic diseases. A new study performed by Claudia Kutter’s research group at the Department of…

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How to convert single-cell RNAseq filename.mtx.gz to seurat object

How to convert single-cell RNAseq filename.mtx.gz to seurat object 0 Hi All, I need your great help with my public scRNAseq data obtained from GEO dataset analysis. For example, if I want to access this dataset (GSE118019) to convert it into Seurat object? There is no separate barcode, features, matrix…

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Inovio Pharmaceuticals Stock Up Momentum With A 31% Rise In The Last 21 Sessions

(VIANEWS) – Shares of Inovio Pharmaceuticals (NASDAQ: INO) rose by a staggering 31.69% in 21 sessions from $1.83 at 2022-10-17, to $2.41 at 11:43 EST on Monday, following the last session’s downward trend. NASDAQ is falling 0.67% to $11,247.78, after two successive sessions in a row of gains. Inovio Pharmaceuticals’s…

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Postdoctoral Scientist – Bioinformatics and Integrative Genomics Research Cluster

At Cedars-Sinai,postdoctoral scientists and other junior researchers fulfill a critical role inexpanding the horizons of medical knowledge through biomedical research. Byhosting more than 100 postdocs, who conduct vital research and receive advancedtraining with expert faculty mentors, Cedars-Sinai supports theongoing medical education process that continues beyond PhD/MD graduation.   Overview: Bioinformaticsand Integrative Genomics  …

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“Seminal” study gene edits immune cells to target cancer

In a new study described by one oncologist as “seminal” and “pioneering”, researchers in the United States have successfully used CRISPR gene-editing technology to create personalized cancer-targeting immune cells. In a Phase 1 trial the researchers tested the technology on 16 patients, and while it was only mildly effective in…

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parallel-fastq-dump install failed

parallel-fastq-dump install failed 0 Good morning, I am trying to install parallel-fastq-dump but I failed. And here is what ssh sever say: conda install parallel-fastq-dump Collecting package metadata (repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. PackagesNotFoundError: The following packages are not available from current…

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Vivek Agnihotri reveals why he named his next The Vaccine War

A few days ago, Vivek Agnihotri made the title of his upcoming movie public. Vivek disclosed the name of his upcoming movie, The Vaccine War, in the wake of The Kashmir Files’ success.  Fans are ecstatic with the movie’s first-look poster, which he also posted. A few days later,…

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Bioinformatics Analyst III Position In South San Francisco, CA

Job Description To discuss more about this job opportunity, please reach out to Chitrank Rastogi (LinkedIn URL – www.linkedin.com/in/chitrank-rastogi-55119a102/), email your updated resume at chitrank.rastogi@collabera.com or give me a call at (425) 523-1648. Thank you! Job Description:Job Roles & Responsibilities: The Genomic Research Center Computational Oncology group (GRC-CO) is seeking…

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Postdoctoral Scientist – Dr. Casero Lab – Bioinformatics

Principal Investigator, David Casero, PhD is looking for a Postdoctoral Scientist to join the team! The depth and breadth of the information generated by modern high-throughput technologies has promoted the integration of data-mining computational methods into everyday basic and clinical research. These so-called omics technologies can detect and quantify a…

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Professor/Associate Professor/Assistant Professor, Department of Computer Science and Engineering job with CHINESE UNIVERSITY OF HONG KONG

Applications are invited for:- Department of Computer Science and Engineering Professor(s) / Associate Professor(s) / Assistant Professor(s) (Ref: 220002PK) (Closing date: May 31, 2023) The Department of Computer Science and Engineering (CSE) at the Chinese University of Hong Kong has multiple tenure-track faculty positions at all ranks to pursue new…

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CAS9 Technology Market is Set to Experience a Revolutionary Growth during 2022-2032 | Cellecta, Inc., abm Inc., GenScript, CRISPR Therapeutic, Intellia Therapeutics, Inc., GE Healthcare, Takara Bio, Inc., AstraZeneca

Scope of CAS9 Technology Market The Global CAS9 Technology Market 2032 Industry Report is a professional and in-depth study on the current state of the CAS9 Technology Market by QMI. The CAS9 Technology Market is supposed to demonstrate a considerable growth during the forecast period of 2022 – 2032. The company…

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Pseudo-bulk DEG analysis with Multi-tissue in scRNA-seq

Hi all, I have 4 datasets (Brain region A (Control & Disease), Brain region B (Control & Disease)) and performed scRNA-seq by integrating all data. And I want to compare Disease and Control in each brain region using pseudo-bulk DEG analysis. (ex. Region A Disease vs Region A Control) Even…

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DNA is providing new clues to why COVID-19 hits people differently | National News | San Antonio

click to enlarge UnSplash / Jacek Pobłocki Researchers are looking at a wide variety of factors that may play a role in how sick people become from COVID-19. Since the beginning of the pandemic, the mercurial nature of the coronavirus has been on display. Some people get mild, cold-like illnesses…

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BTX ECM 830 Square wave electroporation system, Health & Nutrition, Medical Supplies & Tools on Carousell

BTX ECM 830 Square wave electroporation system The ECM 830 is a versatile electroporation system suitable for applications for gene, and protein delivery including: CRISPR, mammalian cells, in vivo, ex vivo, in ovo tissue, ex plant and nuclear transfer. Power on and Tested Item testing pictures…

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M/F Postdoc In Molecular Biology And Genomics

Description Organisation/Company: CNRS Research Field: Biological sciences › Biological engineering Chemistry › Biochemistry Physics › Biophysics Researcher Profile: First Stage Researcher (R1) Application Deadline: 01/12/2022 23:59 – Europe/Brussels Location: France › MONTPELLIER Type Of Contract: Temporary Job Status: Full-time Hours Per Week: 35 Offer Starting Date: 01/01/2023 – Genomics experiments:…

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Intern- Bioinformatics (PHD) (NE) – AI&I at Mayo Clinic

Why Mayo ClinicMayo Clinic is the nation’s best hospital (U.S. News & World Report, 2022-2023) and ranked #1 in more specialties than any other care provider. We have a vast array of opportunities ranging from Nursing, Clinical, to Finance, IT, Administrative, Research and Support Services to name a few. Across…

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Intellia Therapeutics Presents New Interim Data from

Robust reductions in plasma kallikrein levels and HAE attack rates observed at all doses tested All patients treated in the 25 mg and 75 mg cohorts have an ongoing attack-free interval through latest follow-up First three patients treated have an ongoing attack-free interval of 5.5 – 10.6 months after a…

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How to make alpha diversity boxplot?

How to make alpha diversity boxplot? 1 How to make alpha diversity boxplot? I am trying to perform alpha diversity and I performed scatter plot for shannon measure,How can I make boxplot?? meta.physeq = sample_data(meta) tax <- otu_table(tax,taxa_are_rows=FALSE) physeq.alpha = phyloseq(ASV, tax, meta.physeq) sample_data(physeq.alpha)$shannon.physeq <- estimate_richness(physeq.alpha, measures=”Shannon”) plot_richness(physeq.alpha, measures=”Shannon”) alpha_diversity…

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Solved Use package ‘ggplot2’ to generate all the graplis in

Transcribed image text: Use package ‘ggplot2’ to generate all the graplis in HW4. 1. Stock Prices: – Check out the yahoo webpage of historical stock price data for Netflix (NFLX): finance. yahoo.com/quote/NFL X/history? p=NFLX ). – Change the range of Date from 01/01/2021 to 09/30/2021. Click on “Apply” before “Download”….

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Re: [PATCH 2/3] hwmon (coretemp): Add support for dynamic tjmax

Re: [PATCH 2/3] hwmon (coretemp): Add support for dynamic tjmax – Guenter Roeck From: Guenter Roeck <linux@roeck-us.net> To: Zhang Rui <rui.zhang@intel.com> Cc: jdelvare@suse.com, fenghua.yu@intel.com, linux-hwmon@vger.kernel.org, srinivas.pandruvada@linux.intel.com Subject: Re: [PATCH 2/3] hwmon (coretemp): Add support for dynamic tjmax Date: Fri, 11 Nov 2022 13:26:45 -0800 [thread overview] Message-ID: <20221111212645.GA1059539@roeck-us.net> (raw) In-Reply-To:…

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r – how to separate 3 different groups of y in a simple linear regression?

You appear to have data like this (which I quickly simulated). > str(dat[-3]) ‘data.frame’: 1000 obs. of 3 variables: $ age : num 61 62 31 57 48 42 53 24 49 51 … $ insurance: num 14786 1225 32650 2500 2043 … $ charges : num 28788 15386 37445…

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Exploring structure, microbiota, and metagenome functions of epigean and hypogean black deposits by microscopic, molecular and bioinformatic approaches

Spiro, T. G., Bargar, J. R., Sposito, G. & Tebo, B. M. Bacteriogenic manganese oxides. Acc. Chem. Res. 43, 2–9. doi.org/10.1021/ar800232a (2010). Article  CAS  PubMed  Google Scholar  Roitz, J. S., Flegal, A. R. & Bruland, K. W. The biogeochemical cycling of manganese in San Francisco Bay: Temporal and spatial variations…

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A potent, broadly protective vaccine against SARS-CoV-2 variants of concern

Cells and viruses hACE2 expressing BHK-21 (BHK-21-hACE2) and Vero-E6 cells were provided by State Key Laboratory of Virology, Wuhan University. Vero-E6 cells were cultured in DMEM (Gibco, Cat.11995–040) supplemented with 10% fetal bovine serum (Gibco, Cat.10091–148) and 1% penicillin and streptomycin solution (BasalMedia, Cat.S110JV) at 37°C with 5% CO2. BHK-21-hACE2…

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Anti-TFDP2 Antibodies | Invitrogen

Antibodies that detect TFDP2 can be used in several scientific applications, including Western Blot, Immunohistochemistry, ELISA, Immunocytochemistry and Immunoprecipitation. These antibodies target TFDP2 in Human, Mouse and Rat samples. Our TFDP2 polyclonal and monoclonal antibodies are developed in Rabbit and Mouse. Find the TFDP2 antibody that fits your needs. Choose…

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Single-cell transcriptome analysis reveals cellular heterogeneity in mouse intra- and extra articular ligaments

Amiel, D., Frank, C., Harwood, F., Fronek, J. & Akeson, W. Tendons and ligaments: a morphological and biochemical comparison. J. Orthop. Res. 1, 257–265 (1984). PubMed  CAS  Google Scholar  Lipps, D. B., Wojtys, E. M. & Ashton-Miller, J. A. Anterior cruciate ligament fatigue failures in knees subjected to repeated simulated…

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Ammonium transport properties of HEK293 cells expressing RhCG mutants: preliminary analysis of structure/function by site-directed mutagenesis.

Zidi-Yahiaoui N, Ripoche P, Le Van Kim C, Gane P, D’Ambrosio AM, Cartron JP, Colin Y, Mouro-Chanteloup I Ammonium transport properties of HEK293 cells expressing RhCG mutants: preliminary analysis of structure/function by site-directed mutagenesis. Transfus Clin Biol. 2006 Mar-Apr;13(1-2):128-31. Epub 2006 Apr 3. We have recently shown by monitoring intracellular…

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Integrative cross-species analysis of GABAergic neuron cell types and their functions in Alzheimer’s disease

The heterogeneity of GABAergic neurons in human, macaque, mouse, and pig To perform a cross-species comparative study of the GABAergic neurons, we collected the snRNA-seq datasets of the cerebral cortex for human10,11, macaque12,13, mouse14,15, and pig16. After cell-type annotation and filtering out the excitatory neurons and non-neurons, the GABAergic neurons…

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normalization of ChIP-seq data by using the spike-ins or by using total library sizes

Dear all, This question may have been asked before, I have searched the mailing list and I can not find an answer. The question is about the correct way of setting the SizeFactors() in DESeq2 in 3 situations. I would like to double check with you. Although the R code…

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The Phenotype and Function of CD26+ And CD161+ T Lymphocytes in Splenic Marginal Zone Lymphomas

Regulatory T-cells (Tregs) play a crucial role in maintaining immunological balance and regulating the body’s response to tumors in lymphoma patients. However, research on the role of Tregs in the biology and prognosis of splenic marginal zone lymphoma (SMZL) is lacking. CITE-seq (cellular indexing of transcriptomes and epitopes by sequencing),…

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re-annotation of enhancers and long noncoding RNA genes and benchmarking of normalization methods

Illumina Infinium DNA Methylation (5mC) arrays are a popular technology for low-cost, high-throughput, genome-scale measurement of 5mC distribution, especially in cancer and other complex diseases. After the success of its HumanMethylation450 array (450k), Illumina released the MethylationEPIC array (850k) featuring increased coverage of enhancers. Despite the widespread use of 850k,…

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Intestinal gluconeogenesis is downregulated in pediatric patients with celiac disease | BMC Medicine

The present study shows that children with untreated CD have lower expression of genes involved in IGN in duodenal biopsies compared with children with a normal intestinal mucosa. Decreased expression is correlated to a higher Marsh score and, to a lesser degree, tTG antibody levels. These results suggest that CD…

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Multiple Myeloma Is Associated with Loss of COP9 Signalosome Genes at 2q37

The development of a multidrug-resistant condition is a significant factor in myeloma mortality. Widely used immunomodulatory drugs (IMiDs) and more recent CRBN E3 ligase modulator drugs (CELMoDs), which were now in clinical studies, were myeloma medications that target the cereblon (CRBN) protein. Resistance to IMiDs and negative results were brought…

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Rsubread featureCounts outputs dozens of temp files, no counts

Rsubread featureCounts outputs dozens of temp files, no counts 1 @83165de1 Last seen 16 hours ago United States Hello, I am having trouble getting an output file in Rsubreads using featureCounts. I want to set up my data to run analysis of differential expresssion in EdgeR. I’m running about 40…

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smallRNA profiling using HTSeq error

smallRNA profiling using HTSeq error 1 Hello, I want to create a “count” file using HTseq. I have both BAM file and gtf file: htseq-count -f bam -s no -i AK1a_clean_Aligned.sortedByCoord.out.bam gencode.v42.chr_patch_hapl_scaff.annotation.gtf >> AK1a_counts.txt It still gives an error: htseq-count: error: the following arguments are required: featuresfilename Can someone please…

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Plugin error from demux: Index contains duplicate entries, cannot reshape – Technical Support

Hi guys, I seem to have run into this error and I’m not sure why. Any suggestions to fix this? I have already deleted the data and downloaded the files again and am still running into the issue. I am running qiime2-2022.8 qiime demux summarize \ –i-data /Users/sam/LT-paired-ends.qza –o-visualization LT-paired-ends.qzv…

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What is Kegg orthology and what is it used for? : bioinformatics

Kegg orthology is a database of genes with known identity and function. You can submit genomic data to be referenced against that database. I love using kegg to produce genome summaries such as what metabolic pathways are complete and incomplete, and what percentage of genes in the genome are dedicated…

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No module named ‘upstream_ontologist.tests’ (and more)

Source: lintian-brush Version: 0.134 Severity: serious User: debian…@lists.debian.org Usertags: regression Dear maintainer(s), With a recent upload of lintian-brush the autopkgtest of lintian-brush fails in testing when that autopkgtest is run with the binary packages of lintian-brush from unstable. It passes when run with only packages from testing. In tabular form:…

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Plasmidome in mcr-1 harboring carbapenem-resistant enterobacterales isolates from human in Thailand

Kumarasamy, K. K. et al. Emergence of a new antibiotic resistance mechanism in India Pakistan, and the UK: A molecular, biological, and epidemiological study. Lancet Infect. Dis. 10, 597–602 (2010). Article  CAS  PubMed  PubMed Central  Google Scholar  Munoz-Price, L. S. et al. Clinical epidemiology of the global expansion of Klebsiella…

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logits to softmax pytorch

A tag already exists with the provided branch name. Join the PyTorch developer community to contribute, learn, and get your questions answered. Space – falling faster than light? We are converting the layers using ReLu and other neural networks. Learn more, including about available controls: Cookies Policy. In addition, the…

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Module M16 – 224308_v2016_sDBTBS08-15-SW16 – Abasy Atlas

Home Browse Downloads Help About Contact Bacillus subtilis (strain 168) [2016, DBTBS08-15-SW16, Weak + Strong] Module M16     Global regulators  Intermodulars  Weak interactions  Disconnected nodes  | HD quality  Interaction tooltips  | Layout:  Animate | Flash:  | Selection mode …

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Solved Labels (i) \( \leftarrow \) ResetAll

Transcribed image text: Labels (i) ← ResetAll \begin{tabular}{l} Mutation in rRNA \\ gene alters \\ ribosome structure \\ \hline \end{tabular} \begin{tabular}{c} Genes code for \\ drug-degrading \\ enzymes \\ \hline Drug targeted \\ metabolic pathway \\ is bypassed by \\ alternate proteins \end{tabular} Bacterial cell wall lacks pepticioslycan so penicilinifis…

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Mobile resistome of microbial communities and antimicrobial residues from drinking water supply systems in Rio de Janeiro, Brazil

Ilyas, M. et al. Environmental and health impacts of industrial wastewater effluents in Pakistan: A review. Rev. Environ. Health 34, 171–186 (2019). MathSciNet  PubMed  CAS  Google Scholar  Roy, M. A. et al. A Metagenomic approach to evaluating surface water quality in Haiti. Int. J. Environ. Res. Public Health 15, 2211…

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Differential Expression and Bioinformatics Analysis of Plasma-Derived Exosomal circRNA in Type 1 Diabetes Mellitus

Backgrounds: Both exosome and circular RNA (circRNA) have been reported to participate in the pathogenesis of type 1 diabetes mellitus (T1DM). However, the exact role of exosomal circRNA in T1DM is largely unknown. Here, we identified the exosomal circRNA expression profiles in the plasma of T1DM patients and explored their…

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python – Scikit Learn _ufuncs error in Jupyter notebooks

Scikit learn has had _ufuncs errors for the past week and I can’t figure out why. I’m using python on anaconda and a Dell computer, while using Jupyter notebooks. It was previously fine until last week when I got these issues I’ve looked on other stack overflow questions and tried…

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Novel Agents Replace CAR T-Cell Therapy in Later-Line, Relapsed/Refractory DLBCL

New treatments are emerging for patients with relapsed/refractory diffuse large B-cell lymphoma in addition to chimeric antigen receptor T-cell therapy, which has moved up into the second line. New treatments are emerging for patients with relapsed/refractory diffuse large B-cell lymphoma (DLBCL) in addition to chimeric antigen receptor (CAR) T-cell therapy,…

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Digital Genome Market Projected to Reach US$ 20,812.81 million in 2027

According to a new market research study of “Digital Genome Market to 2027 – Global Analysis and Forecast by Product, Application, and End User,” the global digital genome market is expected to reach US$ 20,812.81 million in 2027 from US$ 11,065.31 million in 2019. The market is estimated to grow…

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Parallel Computing Toolbox plugin for MATLAB Parallel Server with Slurm – File Exchange

Installer file for Parallel Computing Toolbox plugin for MATLAB Parallel Server with Slurm. These example files use the generic scheduler interface to enable users to submit jobs to MATLAB Parallel Server with Slurm. Once installed, you will need to perform further steps before the scheduler is ready to use. For…

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How to retrieve all genes of interest from GenBank?

How to retrieve all genes of interest from GenBank? 1 Hello Bioinformagicians! My goal is to create a phylogenetic tree using mitochondria genes of ticks. I’ve recently use genes taken from Refseq complete genomes. However, I want to include gene sequences that may not be part of complete genomes. How…

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Title: The interplay between mitochondrial genome integrity and mitochondrial physiology in heteroplasmic cells

The Graduate School LSM offers an international doctoral programme to motivated and excellent academically qualified next generation researchers at one of Europe’s top Universities. LSM calls for doctoral applications on a yearly basis, open from the 1st of October until the 30th of November 2022. Mitochondria are known as the…

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High-Quality Genome of Pearl Oysters Constructed

Pearl oysters are an important aquaculture animal in Japan, as they produce the beautiful pearls that are sought after for necklaces, earrings, and rings. In the early 1990s, this aquaculture industry was bringing in around 88bn yen annually. But, in the last 20 years, a combination of new diseases and…

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Thermostat and barostat in equilibration phase in a membrane-protein system – User discussions

Davidb November 9, 2022, 10:50am #1 GROMACS version: gromacs-2022GROMACS modification: Yes/No Hi, I am using CHARMM-GUI generated system of a transporter protein in a membrane bilayer. In the equilibration phase, the recommended workflow from CHARMM-GUI is to use Berendsen for both temperature and pressure (semi-isotropic). However, gromacs highly discourage it,…

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Bioconductor – RUVnormalize

    This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see RUVnormalize. RUV for normalization of expression array data Bioconductor version: 3.4 RUVnormalize is meant to remove unwanted variation from gene expression data when the factor of interest is not defined, e.g., to clean…

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Calendar for Kaggle | Advent Calendar 2022

1 【Kaggle】コンペの選び方 2 英語記事をストレスなく機械翻訳するためのTips 3 Join calendar on 3 day You can also reserve a slot without registering a title or URL. Title URL Articles to be submitted are welcome on any website as well as on Qiita. If you link a limited shared article by the day before, it…

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Interpreting time-series analysis with DESeq2 output

Interpreting time-series analysis with DESeq2 output 1 Hello all, I read and followed time course experiment mentioned in DESeq2 vignette bioconductor.org/packages/release/workflows/vignettes/rnaseqGene/inst/doc/rnaseqGene.html#time-course-experiments Please see attached figure which was generated with this model: LRT p-value: ‘~ strain + minute + strain:minute’ vs ‘~ strain + minute’ I have also generated a similar…

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python – eQTL data extraction from database JSON file

It’s a little hard to know what your goal is here based on the sample code, but I do find that your JSON snippet does not match any spec. I was able to edit it to add brackets to make the entries elements of a list: [ { “biosample_ontology”: {…

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3D protein structure predictions made by AI could boost cancer research and drug discovery

The space of characteristic structural elements in AF2 structural models for 21 species. Visualization of t-SNE dimensionality reduction analysis, in which structures with similar structural elements are placed closer together and the 20 most common superfamilies are colored. The axes corresponding to the t-SNE dimension 1 and t-SNE dimension 2…

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OncoSec Announces Reverse Stock Split

PENNINGTON, N.J. and SAN DIEGO, Nov. 8, 2022 /PRNewswire/ — OncoSec Medical Incorporated (NASDAQ: ONCS) (the “Company” or “OncoSec”), a clinical-stage biotechnology company focused on developing intratumoral immunotherapies to stimulate the patient’s own immune system to target and eradicate cancer, today announced it intends to effect a 1-for-22 reverse split…

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Head of the Department of Psychology and Psychosomatics job with MASARYK UNIVERSITY

Department: Department of Psychology and Psychosomatics – Faculty of Medicine Deadline: 7 Dec 2022 Start date: by agreement Job type: full-time Job field: Science and research  |  Education and schooling Dean of the Faculty of Medicine of Masaryk University announces a selection procedure for the position of: Head of the Department of Psychology and Psychosomatics The Department of Psychology…

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SomaLogic Operating Co., Inc. Bioinformatics Scientist Salaries in Boulder

{ “name”: “Native_infosite_salary_detail_fluid_en-US”,”id”: “div-AdSlot-laa23gdr”, “fluid”: true } { } Updated Jun 23, 2021 Any Experience 0-1 Years 1-3 Years 4-6 Years 7-9 Years 10-14 Years 15+ Years Search Confident $169,179/yr Total Pay $132,684/yrBase Pay $36,495/yrAdditional Pay $115K$255K Most Likely Range Possible Range The estimated total pay for a Bioinformatics Scientist…

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

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

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Synthetically valid name error in “MakeContracts” in Limma

Hi, I have a design matrix that looks like this fit <- lmFit(expressionData_2, design = design) fit <- eBayes(fit) Then, I want comparing each subtype to all the other subtypes using MakeContracts function. I wrote this code: ` contrast_matrix <- makeContrasts( `”MS1avsOther” = MS1a – (MS1b + MS2a_1 + MS2a_2…

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COVID-19 Vaccine Induced Thrombotic Thrombocytopenia

There are over 1000 peer-reviewed papers in the preprint server system and or in the National Library of Medicine (PUBMED) describing side effects after mRNA or adenoviral DNA COVID-19 vaccination.  One of the most dreaded complications is vaccine-induced thrombotic thrombocytopenia (VITT).   Because the Spike protein produced in response to the…

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Study identifies novel inhibitors against SARS-CoV-2 main protease

In a recent study posted to the bioRxiv* server, researchers at the University of Arizona screened ~11 million severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) main protease (MPro)-inhibiting small compounds in the ZINC15 database using a structure-based in-silico screening method. Study: Novel inhibitors against COVID-19 main protease suppressed viral infection. Image…

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ggplot2 – Issues with layout in R Markdown

I’m taking over a project from another more experienced user of Rmd, the code ran for her but now that I’m trying, the following code is throwing this error: #Output the plot using plotly a<- plotly::ggplotly(cstr_volume_graph) %>% layout(legend = list( #this layout bit is to change position of legend, although…

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r – How to Combine Two Bar Plots into one Using GGPlot

I am trying to combine two different bar graphs into one using GGPLOT. Seperately the code is ` ggplot(data=by_div_salaries, aes(x=women_salary, y=salaries.ClassificationName)) + geom_bar(stat=”identity”) +labs(title = “Women Head Coach Salaries”) ggplot(data=by_div_salaries, aes(x=men_salary, y=salaries.ClassificationName)) + geom_bar(stat=”identity”) +labs(title = “Men Head Coach Salaries”) and I am trying to get the mens salary next…

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Action is not authorized with current scopes; requires any of [read:servers] – JupyterHub

Hi all,I come from here.As it seems the error is coming from an strange behaviour with Traefik, I have decided to use nginx as proxy.However after configuring it, after log-in the server is stuck in “Your server is starting up” and the progress bar is not moving. If I reload,…

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KDx Diagnostics Inks US Distribution Deal for Bladder Cancer Test

NEW YORK — KDx Diagnostics has struck a US distribution deal for its urine-based URO17 bladder cancer test with EmeritusDx, the companies said on Monday. URO17 uses the oncoprotein keratin 17 as a biomarker to detect new and recurrent bladder cancer. It received CE marking in mid-2020 and is available…

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Generating REST Api server with Open Api plugin (Spring forum at Coderanch)

Hi guys, I need an help to understand the server side code generation pattern that I should use with the openapi-generator while exposing my REST endpoints: <plugin>                <groupId>org.openapitools</groupId>                <artifactId>openapi-generator-maven-plugin</artifactId>              …

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Senior Data Analyst – IT-Online

A role exists within the Data Science and Analytics team within a global financial services company. Get exposure to working and collaborating with technology teams in South Africa, Rest of Africa, US and India. Key duties include Design and develop robust data workflows accross multiple platforms Drive deep insights from…

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Rhythm Pharmaceuticals Announces Publication of Results

— Previously disclosed data demonstrated statistically significant and clinically meaningful reductions in weight and hunger in patients with Bardet-Biedl syndrome — BOSTON, Nov. 08, 2022 (GLOBE NEWSWIRE) — Rhythm Pharmaceuticals, Inc. (Nasdaq: RYTM), a commercial-stage biopharmaceutical company focused on transforming the lives of patients and their families living with hyperphagia…

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

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

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Solved Which of the following statements about PCR is FALSE?

Transcribed image text: Which of the following statements about PCR is FALSE? Check all that apply. PCR uses a heat-stable DNA polymerase. After every cycle of replication, there is a linear increase in the amount of DNA present. Every round of replication starts with the denaturation of dsDNA molecules. If…

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How To Ensure Batch-To-Batch Media Consistency Before Starting Your Bioprocess

RPMI media is one of the most used chemically-defined and protein-free cell media since it works across a variety of mammalian cell lines (e.g., stem cells, T and B cells, hybridomas, HEK293, THP-1 leukemia cells, etc.) grown in suspensions and as monolayer cultures. RPMI media is usually supplemented with fetal…

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Nomascus leucogenys (northern white-cheeked gibbon) nle-miR-34a

Javascript is currently disabled or is not supported by this browser. Please enable JavaScript for full functionality. Sorry, there was a problem loading sequence from server. Please try again and contact us if the problem persists. Nomascus leucogenys (northern white-cheeked gibbon) nle-miR-34a URS000030BD69_61853 Automated summary: This miRNA sequence is 22…

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Transcriptomic dysregulation across cerebral cortex in autism spectrum disorder

A recent study in Nature demonstrated transcriptomic dysregulation in the cerebral cortex in autism spectrum disorder (ASD). Study: Broad transcriptomic dysregulation occurs across the cerebral cortex in ASD. Image Credit: Ukrolenochka/Shutterstock Background The risk factors for ASD include a significant genetic component with hundreds of risk genes involved. Molecular profiling…

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pipeline launch from nf-core website

pipeline launch from nf-core website – input csv bug · Issue #811 · nf-core/sarek · GitHub Labels bug Something isn’t working 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 tab or window….

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10 Adopting PyTorch Lightning – MLOps Engineering at Scale [Book]

This chapter covers Implementing PyTorch Lightning to reduce boilerplate code Adding training, validation, and test support for the DC taxi model Analyzing DC taxi model training and validation using pandas Thus far, you have written your own implementation related to training and testing your machine learning model. However, much of…

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a database of DNA repair pathways

Protein FULL name: CPD photolyase, DNA photolyase Phr (Escherichia coli strain K-12 substr. MG1655) is product of expression of phr gene. Phr is involved in: DDS in Escherichia coli strain K-12 substr. MG1655 DRR in Escherichia coli strain K-12 substr. MG1655 Keywords: FUNCTION: Involved in repair of UV radiation-induced DNA…

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cell Large Granular Lymphocytic Leukemia

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

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How much RAM for scRNAseq 200K cells?

How much RAM for scRNAseq 200K cells? 0 Hi all, Sorry if this has been asked multiple times before – I’m wondering what’s possible in the current landscape of bioinformatics tools. I’m planning on sequencing a set of 200,000 cells or so using 10X’s fixed RNA profiling technology. I’d like…

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Scikit-Learn Cheat Sheet (2022), Python for Data Science

The absolute basics for beginners learning Scikit-Learn in 2022 Photo from Unsplash by Tim Stief Scikit-learn is a free software machine learning library for the Python programming language. It features various classification, regression, clustering algorithms, and efficient tools for data mining and data analysis. It’s built on NumPy, SciPy, and Matplotlib. Sections:1….

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Sbatch How Submitted Location Using Jobid With Code Examples

Sbatch How Submitted Location Using Jobid With Code Examples With this piece, we’ll take a look at a few different examples of Sbatch How Submitted Location Using Jobid issues in the computer language. scontrol show job your_job_id_234533 We learned how to solve the Sbatch How Submitted Location Using Jobid by…

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[MLP:FIA] Rainbow Magical Dash [BIO] by XxRainbowMagic on DeviantArt

I hope you like it _Next-generation belongs to me and ____________________ OC Inspired by and ____________________ Base : link : www.deviantart.com/soiar-deity…____________________ ☆~ [ BIO ] ☆~ Name : Rainbow Magical Dash Nickname : Rainbow,Rm,Rainbowly,Rainla,Magic,Magicie,rmd, Maggie[by close friends only] Gender : femaleSpecies : Alicorn Age : 28Birthday : August 23 Parents…

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Mitochondrial myopathies due to mtDNA muts are inherited solely in a maternal

Mitochondrial myopathies due to mtDNAmuts are inherited solely in a maternalfashion (i.e. maternal inheritence).Therefore, transmission occurs only thruaffected females and never thru males.Mitochondrial myopathy• CNS and skeletal muscles affected first• Weakness,lactic acidosis, ragged redfibers, neuropathy, seizures• Maternal inheritance xLinkeddominant• Rett, Alport, Fragile X• All female children of affect males willhave…

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