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SUMMARY:Telomere research: TelomereHunter2 Workshop
DTSTART:20260414T070000Z
DTEND:20260414T100000Z
DTSTAMP:20260410T042600Z
UID:indico-event-1528@indico.dkfz.de
CONTACT:u.pogorevcnik@dkfz-heidelberg.de\;l.feuerbach@dkfz-heidelberg.de\;
 +49 (0)6221 42 3334\;+49 (0)6221 42 3562
DESCRIPTION:WELCOME to the TelomereHunter2 Workshop!\nTelomereHunter2 is a
  tool for sequence-based telomere analysis that measures telomere content 
 and composition. As input\, it requires sequencing data in BAM or CRAM for
 mat\, and supports a wide variety of sequencing protocols. Originally deve
 loped for cancer genome analysis in humans\, it has been expanded for comp
 arative analysis of vertebrate genomes and addressing research questions i
 n the fields of immunology and aging. TelomereHunter2 now also supports si
 ngle-cell analysis.\nWhat are telomeres?\nTelomeres are specialized nucleo
 protein structures that protect the ends of linear chromosomes from degrad
 ation\, recombination and unwanted DNA repair activities. They comprise of
  repetitive DNA sequences (TTAGGG in humans)\, bound by specific shelterin
  proteins. They shorten with each cell division due to the end-replication
  problem\, until reaching the Mortality stage 1 (also known as the Hayflic
 k limit)\, resulting in cellular senescence or apoptosis.\nWhy are they in
 teresting?\nThe state of telomeres can provide insights into cellular agin
 g\, genome maintenance and its stability. Telomere analysis is especially 
 important in cancer research\, where the activation of telomere maintenanc
 e — either through telomerase or alternative lengthening mechanisms (ALT
 ) — allows the cells to proliferate indefinitely. Identifying the telome
 re lengths and maintenance mechanisms can have an impact on both diagnosis
  and therapy.\nHow to study telomeres?\nAside from wet lab experiments\, t
 elomere content can also be determined from sequencing data. TelomereHunte
 r2 is compatible with many types of sequencing data\, including whole geno
 me sequencing\, low coverage WGS\, exome sequencing\, ChIP-seq\, long-read
  sequencing data. It now also supports data from single-cell experiments.\
 nAim of the course\nIn this ~3 hour course\, we aim to familiarize you wit
 h the use of the TelomereHunter2 software\, the interpretation of the outp
 ut\, and the different insights the abovementioned data can provide. The c
 ourse will consist of a short theoretical background\, followed by a hands
 -on session covering the installation\, use\, and test run of the software
 . Guided results interpretation will help participants identify the telome
 re content and discern the telomere maintenance mechanism of the examples.
  Further breakout sessions will focus on the application of TelomereHunter
 2 to more specific scenarios\, such as single-cell data or non-human genom
 es.\nTarget audience\nThis workshop is aimed at PhD candidates\, postdocs\
 , software technicians\, (graduate) students\, and other researchers or st
 aff interested in telomere analysis. Both academic and non-academic partic
 ipants are welcome.\nParticipation in this workshop is free of charge.\nYo
 u can register here.\nPrerequisites\nA basic knowledge of bioinformatics a
 nd genomics is required\, as well as familiarity using command-line tools.
 \nParticipants must bring their own computers to participate in the hands-
 on session. Note that there are some known compatibility issues within the
  Windows environment. A Linux or macOS device is recommended.\nThe softwar
 e requires python ≥ 3.8. For more information\, see the TelomereHunter2 
 GitHub page.\nPublications\nTelomereHunter2 and its predecessor have been 
 used in many studies and research fields. For more information\, see the f
 ollowing publications.\n\n\nThe TelomereHunter tool:https://doi.org/10.118
 6/s12859-019-2851-0\n\n\nPan-cancer study:https://doi.org/10.1038/s41467-0
 19-13824-9\n\n\nTERRA analysis via RNA-seq in childhoold neuroblastoma:htt
 ps://doi.org/10.1038/s41467-021-21247-8\n\nSingle-cell resolution of telom
 ere content in immune cells (preprint):https://doi.org/10.1101/2024.08.28.
 609339\n\n \n \nWe are looking forward to your registration!\n \n\nHOST
 S/PRESENTERS\n\n\n\n\n\n\n\n\nDr. Lars Feuerbach\nUrška Pogorevčnik\, MS
 c\nFerdinand Popp\, PhD Student\n\n\n\n\n\nVENUE\nThe workshop will take p
 lace in the seminar room A0.106 at the DKFZ ATV/IIC Building\, ground floo
 r.\nDisplay location in Google Maps\nAddress (marked red):Im Neuenheimer F
 eld 24269120 Heidelberg\nAccess with public transport (marked blue) via 
 stops Kirschnerstraße\, Jahnstraße\, or Bunsengymnasium.\n\n \n \n\nOR
 GANIZER\n\nThis event is subject to the DKFZ data protection policy \n 
 \n\nIN COOPERATION WITH\n\n\n \n\nhttps://indico.dkfz.de/event/1528/
IMAGE;VALUE=URI:https://indico.dkfz.de/event/1528/logo-2970217850.png
LOCATION:A0.106 (DKFZ ATV/IIC Building)
URL:https://indico.dkfz.de/event/1528/
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