Register event
13 events found

Scientific topics: ChIP-seq 

and

City: Bogota  or Copenhagen  or Edinburgh  or Ljubljana  or Fribourg  or Melbourne  or Cambridge 

  • Analysis of mapped NGS data with SeqMonk

    3 February 2016

    Cambridge, United Kingdom

    Elixir node event
    Analysis of mapped NGS data with SeqMonk https://tess.elixir-europe.org/events/analysis-of-mapped-ngs-data-with-seqmonk-43412e62-e3fc-4434-a56e-41cec9577dbf [SeqMonk](http://www.bioinformatics.babraham.ac.uk/projects/seqmonk/) is a graphical program for the visualisation and analysis of large mapped sequencing datasets such as ChIP-Seq, RNA-Seq, and BS-Seq. The program allows you to view your reads against an annotated genome and to quantitate and filter your data to let you identify regions of interest. It is a friendly way to explore and analysis very large datasets. This course provides an introduction to the main features of SeqMonk and will run through the analysis of a couple of different datasets to show what sort of analysis options it provides. Further information is available [here](http://www.bioinformatics.babraham.ac.uk/training.html#seqmonk). Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book by linking [here](http://marstons.bio.cam.ac.uk/course-booking/?CourseID=Analysing%20mapped%20NGS%20data%20with%20SeqMonk_bioinfo-seqmonk_03.02.2016_1572361&CourseName=Analysing%20mapped%20NGS%20data%20with%20SeqMonk&CourseDate=03.02.2016&CourseDuration=1&EventID=1572361).'' 2016-02-03 09:30:00 UTC 2016-02-03 17:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR RNA-Seq Exome sequencing Data mining Data visualisation ChIP-seq Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Variant Analysis with GATK

    13 - 14 June 2016

    Cambridge, United Kingdom

    Elixir node event
    Variant Analysis with GATK https://tess.elixir-europe.org/events/variant-analysis-with-gatk-3624e45d-cd74-4297-bc4c-d40298e39632 This workshop will focus on the core steps involved in calling variants with the [Broad’s Genome Analysis Toolkit](https://www.broadinstitute.org/gatk/), using the “Best Practices” developed by the GATK team. You will learn why each step is essential to the variant discovery process, what are the operations performed on the data at each step, and how to use the GATK tools to get the most accurate and reliable results out of your dataset. In the course of this workshop, we highlight key functionalities such as the GVCF workflow for joint variant discovery in cohorts, RNAseq­ specific processing, and somatic variant discovery using MuTect2. We also preview capabilities of the upcoming GATK version 4, including a new workflow for CNV discovery. The workshop is composed of one day of lectures (including many opportunities for Q&A) and one day of hands­on training. On the first day, we explain the rationale, theory and application of our Best Practices for Variant Discovery in high­-throughput sequencing data. On the second day, we walk attendees through hands­on exercises that teach how to manipulate the standard data formats involved in variant discovery and how to apply GATK tools appropriately to various use cases and data types. In the course of these exercises, we demonstrate useful tips and tricks for interacting with GATK, dealing with problems, and using third­party tools such as Samtools, IGV and RStudio. Please note that this workshop is focused on human data analysis. The majority of the materials presented does apply equally to non ­human data, and we will address some questions regarding adaptations that are needed for analysis of non­ human data, but we will not go into much detail on those points. The timetable can be found [here](http://bioinfotraining.bio.cam.ac.uk/postgraduate/specialized/gatk). Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to Book or register Interest by linking [here](http://marstons.bio.cam.ac.uk/course-booking/?CourseID=Variant%20Analysis%20with%20GATK%20_13-14.06.2016_1572767&CourseName=Variant%20Analysis%20with%20GATK&CourseDate=13-14.06.2016&CourseDuration=2&EventID=1572767).'' 2016-06-13 08:30:00 UTC 2016-06-14 16:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR RNA-Seq Genomics Exome sequencing Data visualisation Data mining ChIP-seq Bioinformatics University of Cambridge Bioinformatics Training [] The lecture­ based component of the workshop is aimed at a mixed audience of people who are new to the topic of variant discovery or to GATKseeking an introductory course into the toolsor who are already GATK users seeking to improve their understanding of and proficiency with the tools.The hands­on component is aimed at novice to intermediate users who are seeking detailed guidance with GATK and related tools.Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • 2-day Introduction to NGS Data Analysis

    14 - 15 June 2016

    Melbourne, Australia

    2-day Introduction to NGS Data Analysis https://tess.elixir-europe.org/events/2-day-introduction-to-ngs-data-analysis This Introduction to NGS Data Analysis is a two-day, hands-on workshop that offers attendees a basic understanding of NGS data analysis workflows. The workshop provides hands-on computational experience in analysis of NGS data using common analytical approaches for ChIP-Seq and RNA-Seq data. Workshop Outline -Topics covered by this workshop include: -An introduction to the command line interface and NGS file formats -Assessment of the quality of NGS sequence reads -Sequence alignment algorithms -Basic ChIP-Seq analysis -Basic RNA-Seq analysis 2016-06-14 09:00:00 UTC 2016-06-15 00:00:00 UTC Monash University Monash University, Melbourne, Australia Monash University Melbourne Australia Bioinformatics Data architecture, analysis and design ChIP-seq RNA-Seq [] [] [] workshops_and_courses [] ABRBPAIntroduction
  • Introduction to NGS Data Analysis

    14 - 15 June 2016

    Melbourne, Australia

    Introduction to NGS Data Analysis https://tess.elixir-europe.org/events/introduction-to-ngs-data-analysis This Introduction to NGS Data Analysis is a two-day, hands-on workshop that offers attendees a basic understanding of NGS data analysis workflows. The workshop provides hands-on computational experience in analysis of NGS data using common analytical approaches for ChIP-Seq and RNA-Seq data. 2016-06-14 09:00:00 UTC 2016-06-15 00:00:00 UTC Monash University Melbourne, Australia Melbourne Australia Bioinformatics Data architecture, analysis and design ChIP-seq RNA-Seq [] [] [] workshops_and_courses [] ABRBPABioinformaticsRNA
  • Introduction to ChIP-seq Data Analysis and Visualisation using Ensembl

    22 - 23 November 2016

    Edinburgh, United Kingdom

    Introduction to ChIP-seq Data Analysis and Visualisation using Ensembl https://tess.elixir-europe.org/events/introduction-to-chip-seq-data-analysis-and-visualisation-using-ensembl ChIP-seq (Chromatin ImmunoPrecipitation followed by Sequencing) is a popular high-throughput sequencing assay to identify binding sites of DNA-associated proteins and histone modifications. Determining how proteins interact with DNA and the epigenetic landscape is essential for elucidating the regulation of gene expression. The aim of this workshop is to familiarise the participants with the primary analysis of ChIP-seq data sets by providing a balanced set of lectures and practicals on analysis methodologies. Practicals include publicly available ChIP-seq datasets, processed using widely used and open-source software programs (e.g. FASTQC, BWA, samtools, bedtools, wiggletools, MACS2, MEME, TOMTOM, ngsplot) and visualised on the Ensembl genome browser. 2016-11-22 00:00:00 UTC 2016-11-23 00:00:00 UTC Edinburgh Genomics The King's Buildings, The University of Edinburgh, Edinburgh, United Kingdom The King's Buildings, The University of Edinburgh Edinburgh United Kingdom ChIP-seq Bioinformatics [] [] [] workshops_and_courses [] BioinformaticsChIP-seq
  • Analysis of gene regulatory sequencing data: ChIP-seq, ATAC-seq and Hi-C

    24 - 25 November 2016

    Cambridge, United Kingdom

    Elixir node event
    Analysis of gene regulatory sequencing data: ChIP-seq, ATAC-seq and Hi-C https://tess.elixir-europe.org/events/analysis-of-gene-regulatory-sequencing-data-chip-seq-atac-seq-and-hi-c This advanced course will cover high-throughput sequencing data processing, ChIP-seq data analysis (including alignment, peak calling), differences in analyses methods for transcription factors (TF) binding and epigenomic datasets, a range of downstream analysis methods for extracting meaningful biology from ChIP-seq data and will provide an introduction to the analysis of open chromatin with ATAC-seq and long-distance interactions with chromosomal conformation capture based Hi-C datasets. Materials for this course can be found [here](https://github.com/shamith-s/NGS_course). Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=1878956&course-title=Analysis%20of%20gene%20regulatory%20sequencing%20data).'' 2016-11-24 09:30:00 UTC 2016-11-25 17:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Epigenomics Data visualisation ChIP-seq Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Introduction to high-throughput sequencing data analysis

    28 - 31 March 2017

    Cambridge, United Kingdom

    Elixir node event
    Introduction to high-throughput sequencing data analysis https://tess.elixir-europe.org/events/introduction-to-high-throughput-sequencing-data-analysis This course provides an introduction to high-throughput sequencing (HTS) data analysis methodologies. Lectures will give insight into how biological knowledge can be generated from RNA-seq, ChIP-seq and DNA-seq experiments and illustrate different ways of analyzing such data. Practicals will consist of computer exercises that will enable the participants to apply statistical methods to the analysis of RNA-seq, ChIP-seq and DNA-seq data under the guidance of the lecturers and teaching assistants. It is aimed at researchers who are applying or planning to apply HTS technologies and bioinformatics methods in their research. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=1983575&course-title=Introduction%20to%20high-throughput%20sequencing%20data%20analysis).'' 2017-03-28 08:30:00 UTC 2017-03-31 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Transcriptomics RNA-Seq Functional genomics Epigenomics Data visualisation Data mining ChIP-seq Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Introduction to RNA-seq and ChIP-seq data analysis

    22 - 23 June 2017

    Cambridge, United Kingdom

    Elixir node event
    Introduction to RNA-seq and ChIP-seq data analysis https://tess.elixir-europe.org/events/introduction-to-rna-seq-and-chip-seq-data-analysis-83b4f656-ef26-441e-b0ef-f990e78de471 The aim of this course is to familiarize the participants with the primary analysis of datasets generated through two popular high-throughput sequencing (HTS) assays: ChIP-seq and RNA-seq. This course starts with a brief introduction to the transition from capillary to high-throughput sequencing (HTS) and discusses quality control issues, which are common among all HTS datasets. Next, we will present the alignment step and how it differs between the two analysis workflows. Finally, we focus on dataset specific downstream analysis, including peak calling and motif analysis for ChIP-seq and quantification of expression, transcriptome assembly and differential expression analysis for RNA-seq. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2017446&course-title=Introduction%20to%20RNA-seq%20and%20ChIP-seq%20data%20analysis).'' 2017-06-22 08:30:00 UTC 2017-06-23 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR RNA-Seq ChIP-seq Data mining Transcriptomics Data visualisation Functional genomics Epigenomics Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals 42 workshops_and_courses first_come_first_served HDRUK
  • Introduction to RNA-seq and ChIP-seq data analysis

    25 - 26 October 2017

    Cambridge, United Kingdom

    Elixir node event
    Introduction to RNA-seq and ChIP-seq data analysis https://tess.elixir-europe.org/events/introduction-to-rna-seq-and-chip-seq-data-analysis-ee3e83c6-b331-43d9-822f-d4e4f865bd8f The aim of this course is to familiarize the participants with the primary analysis of datasets generated through two popular high-throughput sequencing (HTS) assays: ChIP-seq and RNA-seq. This course starts with a brief introduction to the transition from capillary to high-throughput sequencing (HTS) and discusses quality control issues, which are common among all HTS datasets. Next, we will present the alignment step and how it differs between the two analysis workflows. Finally, we focus on dataset specific downstream analysis, including peak calling and motif analysis for ChIP-seq and quantification of expression, transcriptome assembly and differential expression analysis for RNA-seq. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2197137&course-title=Introduction%20to%20RNA-seq%20and%20ChIP-seq%20data%20analysis).'' 2017-10-25 08:30:00 UTC 2017-10-26 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR RNA-Seq ChIP-seq Data mining Transcriptomics Data visualisation Functional genomics Epigenomics Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Introduction to ChIP-seq Data Analysis and Visualisation using Ensembl

    23 - 24 November 2017

    Edinburgh, United Kingdom

    Elixir node event
    Introduction to ChIP-seq Data Analysis and Visualisation using Ensembl https://tess.elixir-europe.org/events/introduction-to-chip-seq-data-analysis-and-visualisation-using-ensembl-d125d464-c708-4919-8322-19d50246c22d ChIP-seq (Chromatin ImmunoPrecipitation followed by Sequencing) is a popular high-throughput sequencing assay to identify binding sites of DNA-associated proteins and histone modifications. Determining how proteins interact with DNA and the epigenetic landscape is essential for elucidating the regulation of gene expression. The aim of this workshop is to familiarise the participants with the primary analysis of ChIP-seq data sets by providing a balanced set of lectures and practicals on analysis methodologies. Practicals include publicly available ChIP-seq datasets, processed using widely used and open-source software programs (e.g. FASTQC, BWA, samtools, bedtools, wiggletools, MACS2, MEME, TOMTOM, ngsplot) and visualised on the Ensembl genome browser. 2017-11-23 09:00:00 UTC 2017-11-24 17:00:00 UTC The King's Buildings, The University of Edinburgh, Edinburgh, United Kingdom The King's Buildings, The University of Edinburgh Edinburgh United Kingdom EH9 3JN Genomics ChIP-seq Bioinformatics Edinburgh Genomics Bert Overduin - bert.overduin@ed.ac.uk [] [] workshops_and_courses [] BioinformaticsChIP-seqGenomics
  • Advanced ChIP-seq data analysis

    22 - 23 February 2018

    Cambridge, United Kingdom

    Elixir node event
    Advanced ChIP-seq data analysis https://tess.elixir-europe.org/events/advanced-chip-seq-data-analysis The primary aim of this course is to familiarise participants with the analysis of ChIP-seq data and provide hands-on training on the latest analytical approaches. The course starts with an introduction to ChIP-seq experiments and discusses quality control issues. We first show basic analytical steps such as alignment, peak calling and motif analysis, followed by practical examples on how to work with biological replicates and fundamental quality metrics for ChIP-seq datasets. We then focus on the analysis of differential binding when comparing between different samples. In addition, there is a short introduction to ATAC-seq data analysis for the detection of regions of open chromatin. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2425125&course-title=Advanced%20ChIP-seq%20data%20analysis).'' 2018-02-22 09:30:00 UTC 2018-02-23 17:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR ChIP-seq Data mining Data visualisation Functional genomics Epigenomics Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • ChIP-seq and ATAC-seq analysis

    2 - 3 May 2019

    Cambridge, United Kingdom

    Elixir node event
    ChIP-seq and ATAC-seq analysis https://tess.elixir-europe.org/events/chip-seq-and-atac-seq-analysis The primary aim of this course is to familiarise participants with the analysis of ChIP-seq and ATAC-seq data and provide hands-on training on the latest analytical approaches. The course starts with an introduction to ChIP-seq experiments for the detection of genome-wide DNA binding sites of transcription factors and other proteins. We first show data quality control and basic analytical steps such as alignment, peak calling and motif analysis, followed by practical examples on how to work with biological replicates and fundamental quality metrics for ChIP-seq datasets. On the second day, we then focus on the analysis of differential binding, comparing between different samples. We will also give an introduction to ATAC-seq data analysis for the detection of regions of open chromatin. The training room is located on the first floor and there is currently no wheelchair or level access available to this level. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=2836139&course-title=ChIP-seq%20and%20ATAC-seq%20analysis).'' 2019-05-02 08:30:00 UTC 2019-05-03 16:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR ChIP-seq Data mining Data visualisation Functional genomics Epigenomics Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • ChIP-seq and ATAC-seq analysis

    23 - 24 October 2019

    Cambridge, United Kingdom

    Elixir node event
    ChIP-seq and ATAC-seq analysis https://tess.elixir-europe.org/events/chip-seq-and-atac-seq-analysis-b2a9ec58-3f94-497f-b6a6-d18041934b1f The primary aim of this course is to familiarise participants with the analysis of ChIP-seq and ATAC-seq data and provide hands-on training on the latest analytical approaches. The course starts with an introduction to ChIP-seq experiments for the detection of genome-wide DNA binding sites of transcription factors and other proteins. We first show data quality control and basic analytical steps such as alignment, peak calling and motif analysis, followed by practical examples on how to work with biological replicates and fundamental quality metrics for ChIP-seq datasets. On the second day, we then focus on the analysis of differential binding, comparing between different samples. We will also give an introduction to ATAC-seq data analysis for the detection of regions of open chromatin. The training room is located on the first floor and there is currently no wheelchair or level access available to this level. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=3049814&course-title=ChIP-seq%20and%20ATAC-seq%20analysis).'' 2019-10-23 08:30:00 UTC 2019-10-24 16:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR ChIP-seq Data mining Data visualisation Functional genomics Epigenomics Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
Note, this map only displays events that have geolocation information in TeSS.
For the complete list of events in TeSS, click the grid tab.