rna seq atlas

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  The adult human testis transcriptional cell atlas

  Oct 12 2018  Single cell RNA seq performance library preparation and sequencing scRNA Seq was performed using the 10 Genomics system Briefly each experiment captured 1500 single cells in order to obtain

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  An Expanded Maize Gene Expression Atlas based on RNA

  Here we report an expanded RNA seq based B73 gene atlas encompassing 79 total RNA samples includ ing 50 of the 60 tissues reported in the original microar ray based gene atlas Sekhon et al 2011 12 additional postflowering stalk and leaf tissues that were previously profiled using microarrays Sekhon et al 2012 and

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  KPMP Kidney Tissue Atlas

  The Kidney Tissue Atlas is a set of interactive tools built to promote retrieval exploration discovery and analysis of the KPMP data by the greater research community Single cell RNA seq scRNA seq 0 15 12 Regional transcriptomics LMD RNA seq 9 22 5 Loading

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  Human Lung Cell Atlas

  Human Lung Cell Atlas Although single cell RNA sequencing studies have begun providing compendia of cell expression profiles it has proven more difficult to systematically identify and localize all molecular cell types in individual organs to create a full molecular cell atlas From droplet and plate based single cell RNA sequencing applied

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  ChIPBase v2.0 Decoding Transcriptional ..

  Improved performance and updated the RNA seq datasets Release version 2.3.0 2016 08 10 Added Co Experession tool 9 900 miRNA seq and 10 300 RNA seq data 32 cancer

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  Single cell RNA sequencing reveals a pro invasive cancer

  Mar 17 2021  The Cancer Genome Atlas TCGA data analysis Bulk RNA seq count data from 377 patients with gastric cancer were downloaded using the Bioconductor TCGA biolinks package version 2.14.0 The count data were converted to transcripts per million TPM using the countToTpm matrix function in the R package GeoTcgaData .

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  HCA Data Browser

  Description Assessment of the effect of cold ischaemic time on single cell RNAseq data from human tissues using 10x Genomics 3 single cell RNA sequencing This project contains data for spleen oesophagus epithelium and lung parenchyma three tissues that had previously been reported to have differential sensitivity to ischaemia.

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  RNA detector the all in one solution for RNA seq analysis.

  RNA detector the all in one solution for RNA seq analysis An easy to use open source pipeline for RNA deq data analysis and reporting built using state of the art software for a reliable user

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  Mapping the Mouse Cell Atlas by Microwell Seq Cell

  Single cell RNA sequencing scRNA seq technologies are poised to reshape the current cell type classification system However a transcriptome based single cell atlas has not been achieved for complex mammalian systems Here we developed Microwell seq a high throughput and low cost scRNA seq platform using simple inexpensive devices.

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  Single cell RNA sequencing reveals a pro invasive cancer

  Mar 17 2021  The Cancer Genome Atlas TCGA data analysis Bulk RNA seq count data from 377 patients with gastric cancer were downloaded using the Bioconductor TCGA biolinks

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  Identification of Tumor Tissue of Origin with RNA Seq Data

  Feb 17 2021  Specifically we downloaded the expression profiles of 20 501 genes for 7713 samples from The Cancer Genome Atlas TCGA which were used as the training data set The RNA seq data of 79 tumor samples from 6 cancer types with known origins were also downloaded from the Gene Expression Omnibus GEO for an independent data set.

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  RNA seq Pipeline 2 Single ended ENCODE Common

  Description Adopted pipeline for single ended unstranded data long RNA seq data as developed by the ENCODE RNA Working Group RNA libraries generated from mRNAs poly A rRNA depleted total RNA or poly A populations that are size selected to be longer than approximately 200 bp may be run through this pipeline.

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  A comprehensive RNA Seq based gene expression atlas of the

  May 12 2021  A comprehensive RNA Seq based gene expression atlas of the summer squash Cucurbita pepo provides insights into fruit morphology and ripening mechanisms Aliki Xanthopoulou 1 na1 Javier Montero Pau 2 na1 Belén Picó 3 Panagiotis Boumpas 1 Eleni Tsaliki 1 Harry S Paris 4 Athanasios Tsaftaris 5 Apostolos Kalivas 1 Ifigeneia Mellidou 1

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  Melonet DB a Grand RNA Seq Gene Expression Atlas in Melon

  In this study we present a large gene expression atlas of melon that was constructed from RNA sequencing RNA seq data obtained from 30 different tissues including fruit developmental

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  Witches Broom Disease Transcriptome Atlas

  Version 1.0 includes 45 RNA seq libraries The WBD Transcriptome Atlas is a comprehensive database that was developed by the Genomics and Expression Laboratory Unicamp Brazil to support the study of one of the most devastating diseases of Theobroma cacao

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  Allen Brain Atlas Understanding the units of gene

  The heatmap showing the gene expression levels across the different brain samples was generated from RNA Seq data From the official documentation on how the RNA Seq data for

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  Mouse RNA Atlas

  Normalized Expression In Sub Clusters Roll Over Main Chart To Reveal Normalized Sub Cluster Expression Values For 00r ac107638.2.

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  An Expanded Maize Gene Expression Atlas based on RNA

  Mar 01 2016  Here we report an expanded RNA seq based B73 gene atlas encompassing 79 total RNA samples including 50 of the 60 tissues reported in the original microarray based

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  Single cell RNA sequencing atlas reveals an MDK dependent

  Nov 01 2021  Single cell RNA sequencing atlas reveals an MDK dependent immunosuppressive environment in ErbB pathway mutated gallbladder cancer Through

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  HTAPP WEBINAR SERIES

  Human Tumor Atlas Pilot Project HTAPP Webinar Series LINKS Toolbox paper Slyper et al Nature Medicine volume 26 pp 792–802 2020 A single cell and single nucleus RNA Seq

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  Integration of RNA Seq and proteomics data identifies

  Jul 23 2021  We utilized the publicly available TCGA and GTEx RNA Seq database as our primary sources of GBM tumour and normal brain tissue transcriptomic data respectively We downloaded the datasets containing RNA Seq gene expression profiles and clinical information of 166 patients from TCGA GBM and 408 normal brain tissues from the GTEx database.

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  APEX seq RNA subcellular localization by proximity

  We introduce APEX‑seq a method for RNA sequencing based on direct proximity labeling of RNA using the peroxidase enzyme APEX2 APEX‑seq in nine distinct subcellular locales produced a nanometer resolution spatial map of the human transcriptome as a resource revealing extensive and exquisite patterns of localization for diverse RNA classes and

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  Atlas of the Immune Cell Repertoire in Mouse

  Jun 08 2018  Atlas of the Immune Cell Repertoire in Mouse Atherosclerosis Defined by Single Cell RNA Sequencing and Mass Cytometry Holger Winkels Erik Ehinger Melanie Vassallo

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  RNA detector the all in one solution for RNA seq analysis.

  RNA detector the all in one solution for RNA seq analysis An easy to use open source pipeline for RNA deq data analysis and reporting built using state of the art software for a reliable user experience Download now.

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  recount3 summaries and queries for large scale RNA seq

  2 days ago  RNA sequencing RNA seq is a key tool in the study of disease and biology The public Sequence Read Archive SRA which contains RNA seq and other sequencing data types doubles in size approximately every 18 months .We describe the recount3 project that makes archived RNA seq datasets both from the SRA and from compendia like The

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  Overview Allen Brain Atlas Aging Dementia and TBI Study

  RNA Seq RNA sequencing data for temporal cortex parietal cortex cortical white matter and hippocampus isolated by macrodissection Protein quantification by Luminex Luminex assays

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  Advanta RNA Seq NGS Library Prep Kit

  stranded RNA seq libraries from a variety of organisms Figure 1 Advanta RNA Seq NGS Library Prep Kit workflow on Juno Samples and Advanta RNA Seq reagents are added to the 48.Atlas IFC which is subsequently processed on the Juno instrument The system solution automates many tedious hands on steps to generate up to 48 RNA seq libraries.

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  Atlas of the Immune Cell Repertoire in Mouse

  Jun 08 2018  Atlas of the Immune Cell Repertoire in Mouse Atherosclerosis Defined by Single Cell RNA Sequencing and Mass Cytometry Holger Winkels Erik Ehinger Melanie Vassallo Konrad Buscher Huy Q Dinh Kouji Kobiyama Anouk A.J Hamers Clément Cochain Ehsan Vafadarnejad Antoine Emmanuel Saliba Alma Zernecke Akula Bala Pramod Amlan K Ghosh

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  Melonet DB a grand RNA seq gene expression atlas in melon

  Melon Cucumis melo L is an important Cucurbitaceae crop produced worldwide exhibiting wide genetic variations and comprising both climacteric and non climacteric fruit types The muskmelon cultivar Earl s favorite Harukei 3 Harukei 3 known for its sweetness and rich aroma is used for breeding of high grade muskmelon in Japan We conducted RNA sequencing RNA seq

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  Hippocampus RNA seq atlas

  At the Hippocampus RNA seq atlas site you can interactively analyze and visualize RNA seq data for all excitatory cell populations in the hippocampus at multiple levels of granularity Analysis can be hypothesis driven by supplying predetermined lists of genes or the dataset can be explored in a gene discovery based fashion using enrichment and/or differential expression

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  An RNA Seq based gene expression atlas of the common bean

  title = An RNA Seq based gene expression atlas of the common bean abstract = Background Common bean Phaseolus vulgaris is grown throughout the world and comprises roughly 50 of the grain legumes consumed worldwide Despite this genetic resources for common beans have been lacking Next generation sequencing has facilitated our