Results for "transcriptome"
Users
About me: ...s evolution. I (We) develop certain computational pipeline, and algorithms to harness the huge amount of biological data (genomes, epigenomes, transcriptomes, proteomes, etc.) to answer...25 days ago
- About me: PhD student at University of Gothenburg. Most of my work involves designing or benchmarking pipelines for transcriptome and genomic sequencing data related to epigenetics and cancer.Brief description: genome annotation, transcriptome, RNA-seq, ChIP-seq, ChRIP, PARCLIP, cancer, noncoding, long-noncoding RNAS, epigenetics
1311 days ago
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Blogs
Integrated mRNA and microRNA transcriptome analysis in Strand NGS
...aryngeal carcinoma case study, this paper highlights the integrated transcriptome analysis capabilities of Stra...orks.Read the application note on Integrated mRNA and microRNA transcriptome analysis in Strand NGS by Vee...3212 days ago
Live Webinar on RNA-Seq Data Analysis on 9 Nov 2016
...q Data Analysis Abstract: Strand NGS supports an extensive workflow for the analysis and visualization of RNA-Seq data. The workflow includes Transcriptome / Genome alignment, Different...2770 days ago
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Bookmarks
- ...lexible manner to perform both simple and complex bioinformatics tasks. The next-generation sequencing included whole genome sequencing(WGS), transcriptome sequencing (whole cDNA sequen...
3248 days ago
- ...mostly limited to technical measures like N50. BUSCO provides measures for quantitative assessment of genome assembly, gene set, and transcriptome completeness based on evoluti...
2931 days ago
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Discussion topics
- Like in case of plant genomes where nature of genome is too complex and huge in size to accomplish complete de novo assembly by current sequencing technology. What would be alternate solution? Can we live in reference free world?
3959 days ago
Pages
Genome Assembly Tools and Software - PART2 !!
...LASSO Regression Approach to RNA-Seq Based Transcriptome AssemblyIsoLasso is an a...els from RNA-Seq reads. CEM 0.9.1 – Transcriptome Assembly and Isoform Expressi...ly programs. Oases 0.2.08 – De novo Transcriptome Assembler for very short read...2700 days ago
Awesome perl frameworks, libraries and software - PART 4
...res, no source filter yogan/cope - A colourful wrapper for terminal programs trinityrnaseq/trinityrnaseq - Trinity RNA-Seq de novo transcriptome assembly tokuhirom/p5-router...2509 days ago
Top-level pages
Useful Publications and Websites for Deep Sequencing Data Analysis
...MedCentral Biases in Illumina transcriptome sequencing caused by random h...s 41:21–32, 2013 PubMed Transcriptome analysis Assembly and compar...ds.] Optimization of de novo transcriptome assembly from next-generation...TS and R-Cloud for analysis of transcriptome data3794 days ago
Commercial and public next-gen-seq (NGS) software
...caller" Transcriptomics ERANGE - Mapping and Quantifying Mammalian Transcriptomes by RNA-Seq. Supports Bowtie,...versity of California, BerkeleyNGS-Trex: Next Generation Sequencing Transcriptome profile explorer http://www.b...3533 days ago
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Wire posts
News
- ...stions. In this webinar, Dr. Deng will discuss the analysis of transcriptome, flow cytometry and cytokine...detail the identification of prominent clinical variables, a set of transcriptome biomarkers, and their role in...
2497 days ago
Opportunity posts
Livestock Functional Genomics Summer School (LFG 2013)
...rstand the basis and the context of livestock big molecular data, and be able to manipulate high density genotypes, whole genome sequences and transcriptome data. The Summer School wi...3943 days ago
Postdoc Positions - Mammalian Transcriptome Evolution at SIB
...s (e.g., the origin and evolution of mammalian sex chromosomes). In the framework of a recently launched series of projects, a large amount of transcriptome and genome (e.g., epigenome)...3933 days ago
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ResearchLabs posts
- ...rmatics) is specialized in the conception, implementation, evaluation and application of bioinformatics approaches for the analysis of genome, transcriptome, proteome and metabolism. Ou...
3836 days ago
PLANT COMPUTATIONAL GENOMICS LAB – JILL WEGRZYN
...nomic and transcriptomic sequences from non-model plant species. We do this by developing approaches to examine gene finding, gene expression, transcriptome assembly, and conserved eleme...1368 days ago
Video
Dr. Ken Buetow: IS & Personalized Medicine Lecture-Part 1
...approaches have been extended to systematically identify insertion/deletion variation, translocations, and rearrangements. In application to transcriptome data, these methods facilita...3885 days ago
Bio-Scripts
- ...Julian Hibberd, and Steve Kelly DESCRIPTION: Analyse a de-novo transcriptome assembly using three kinds of...comma-separated --reference= Reference proteome or transcriptome file in FASTA...
2137 days ago
Tryst
Tryst with a Bioinformatician # Dr Altan Kara
...Briefly, the overall aim of the project which I am working for (AKMARK (Project CODE:5153403)) is, applying a bioinformatics-supported genome, transcriptome, proteome, and metabolome ana...2376 days ago
Tags
- KisSplice is a software that enables to analyse RNA-seq data with or without a reference genome. It is an exact local transcriptome assembler that allows to identify SNPs, indels and alternative splicing events. It can deal with an arbitrary number of biological conditions, and will quantify each...
Tags: Bioinformatics, Analysis, NGS, KISSPLICE, Transcriptome, Assembler, Genome
2833 days ago
gVolante: Completeness Assessment of Genome/Transcriptome Sequences
A brand-new web server, gVolante, which provides an online tool for (i) on-demand completeness assessment of sequence sets by means of the previously developed pipelines CEGMA and BUSCO and (ii) browsing pre-computed completeness scores for publicly available data in its database sectionTags: gVolante, Completeness, Assessment, Genome, Transcriptome, Sequences
1953 days ago
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Comments
Comment on "Running Trinity on RNA-seq !"
...nbsp;and functionally annotate the transcripts using Trinotate. If your organism has an assembled genome, consider using the Trinity transcriptome assemblies for gene structure...2137 days ago
Comment on "GraphMap - A highly sensitive and accurate mapper for long, error-prone reads"
.... --gtf STR Path to a General Transfer Format file. If specified, a transcriptome will be built from the refere...sed for mapping. Output SAM alignments will be in genome space (not transcriptome). -K, --in-fmt STR Format in...2306 days ago
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