Tag: CROP-seq

Bioinformatics Scientist – Job at Spectraforce Technologies in Cambridge, MA

Title: Bioinformatics Scientist Location: Cambridge, MA 02141 Duration: 12 Months Pay rate starts from $70/hr. Note: * Shift: M-F(9am-6pm)EST * Work location: Cambridge, MA-Hybrid (2 days/week) or Remote (ideally, eastern time zone) Qualifications: Education Minimum Requirement: * Ph.D. (or 5+ years of relevant experience) in Bioinformatics, Biostatistics, Computational…

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Bridge Informatics hiring Bioinformatics Engineer in Toronto, Ontario, Canada

Company Description At Bridge Informatics, we specialize in developing custom data-driven solutions for life science customers. Our mission is to bridge the gap between bench researchers and bioinformaticians, practice and theory, and data and insight to provide efficient, interdisciplinary solutions for our clients. Join our team and work on innovative…

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GiRAFR improves gRNA detection and annotation in single-cell CRISPR screens

gRNA mutations prevent gRNA detection We transformed A549 cells expressing a tamoxifen-inducible Cas9 with a lentiviral pool for expression of 120 gRNAs (Supplementary Table 1) at low multiplicity of infection. After stringent selection using puromycin and 2 days of Cas9 induction, cells were allowed to grow for another 5 days. Next,…

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Single-cell brain organoid screening identifies developmental defects in autism

Stem cell and cerebral organoid culture conditions Feeder-free hES cells or iPS cells were cultured on hES cell-qualified Matrigel (Corning, catalogue no. 354277)-coated plates with Essential8 stem cell medium supplemented with bovine serum albumin (BSA). H9 embryonic stem cells were obtained from WiCell. Cells were maintained in a 5% CO2 incubator at 37 °C….

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Scale Biosciences Continues Commercial Expansion with Introduction of New and Differentiated Single Cell Methylation and Single Cell RNA Sequencing Solutions

SAN DIEGO–(BUSINESS WIRE)– Scale Biosciences, Inc. (ScaleBio™), an innovator in single cell sequencing leveraging combinatorial indexing technologies, today announced an expansion of their product portfolio to enable a broader range of single cell omics experiments and unlock new translational research applications. New products include the ScaleBio Single Cell Methylation Kit,…

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Bioconductor – scMAGeCK

DOI: 10.18129/B9.bioc.scMAGeCK     This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see scMAGeCK. Identify genes associated with multiple expression phenotypes in single-cell CRISPR screening data Bioconductor version: 3.12 scMAGeCK is a computational model to identify genes associated with multiple expression phenotypes from CRISPR…

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Expert Advice on CRISPR Design

  The following is an excerpt from an E-book that Twist developed for Genetic Engineering News: The Changing Landscape of CRISPR Screening: A guidebook to the latest CRISPR screening methodologies and technologies. You can download the full E-book here.   Even for seasoned researchers, designing an sgRNA library can be…

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Multimodal perturbation analyses of cyclin-dependent kinases reveal a network of synthetic lethalities associated with cell-cycle regulation and transcriptional regulation

Phylogenetic tree construction Tree diagram showing relationships between CDK proteins was constructed from a multi-sequence alignment (MSA) using Geneious95. The “Geneious Aligner”, was used to generate the MSA, and the neighbor joining method was used to construct the tree. All default parameters were used except where otherwise indicated. Combinatorial CRISPR…

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Inferring and perturbing cell fate regulomes in human brain organoids

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

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CROP-seq data analysis

CROP-seq data analysis 1 Hi, I am a new bie to single cell sequencing analysis. I have to analyze CROP-seq data, I am going through the following paper, www.nature.com/articles/nmeth.4177. I have to use cell ranger ( instead of DROP-seq software) as the first step to process single cell data.I wanted…

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