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DTSTAMP:20260711T195553Z
UID:2834fb5e-870f-40fd-8a65-3cb687a8a1a6
DTSTART:20250707T080000Z
DTEND:20250709T150000Z
DESCRIPTION:Educators:\nNils Kleinbölting (BiGi)\, Daniel Wibberg (CAU)\, 
 Anna-Maria Möller\, Florian Kraft\, Tassilo Wollenweber\n\nDate:\n7-9 Jul
 y 2025\n\nLocation:\nDüsseldorf &amp\; Online\n\nContent:\nThe aim of thi
 s workshop is to familiarize participants with Long-Read sequencing techno
 logies\, its applications\, and the best practice bioinformatics workflow.
  Participants will gain insights into how this technology facilitates the 
 assembly of prokaryotic and eukaryotic genomes\, focusing on establishing 
 finalized genome sequences.\n\nThe workshop will begin with an introductio
 n to PacBio and Nanopore sequencing\, covering its principles and differen
 ces from other sequencing methods. We will discuss the evolution of Long-R
 ead technology and its current role in the sequencing landscape. Participa
 nts will also explore various applications\, including genome assembly\, r
 eal-time sequencing and transcriptomics\, illustrated by case studies high
 lighting its effectiveness in research and clinical settings. A central co
 mponent of the first workshop day is a practical part in which a sequencin
 g library is first prepared and then used for real-time sequencing.\n\nOn 
 the second day\, students will start getting familiar with the Linux opera
 ting system and receive an introduction to the command line\, with a focus
  on file and directory management. No prior bioinformatics knowledge is re
 quired\n\nOn the third\, bioinformatics workflow associated will be outlin
 ed\, covering the standard processes from raw data acquisition to final ge
 nome assembly. Participants will learn about key tools such as Minimap2\, 
 Canu\, and Flye\, as well as the advantages and pitfalls of Long-Read sequ
 encing\, including long read lengths and potential error rates.\n\nThe han
 ds-on component will guide participants through a typical workflow\, start
 ing with data preprocessing and quality control in the de.NBI cloud enviro
 nment. They will practice sequence alignment and genome assembly\, followe
 d by basic genome annotation techniques.\n\nLearning goals:\nThis workshop
  aims to teach basic skills and best practices to researchers working with
  Long-Read data. The full course will include all necessary steps from an 
 introduction to PacBio and Nanopore sequencing (1)\, raw sequencing data t
 o finalized genomes (2) with a de novo assembly and (3) with re-sequencing
  and mapping to a reference.\n\nPrerequisites:\nThis workshop is intended 
 for PhD students and postdocs with molecular biology background in genomic
 s. Good understanding of command line tools is a plus\, but not required. 
 The 2nd day will offer an introduction to Linux and the command line.\n\nT
 ools:\nminimap2\, canu\, pilon\, guppy\, porechop\, medaka\, poretools\, n
 extstrain\, quast\, \n\nKeywords:\nNanopore sequencing\, PacBio sequencing
 \, genome assembly\, genomics\,
LOCATION:Düsseldorf
SUMMARY:Long Re(ad)volution - Workshop
URL;VALUE=URI:https://www.denbi.de/training-courses-2025/1896-long-re-ad-vo
 lution-workshop
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