BEGIN:VCALENDAR
VERSION:2.0
PRODID:-//CERN//INDICO//EN
BEGIN:VEVENT
SUMMARY:Short Fragment Sequence Alignment on the HP-SEE Infrastructure
DTSTART;VALUE=DATE-TIME:20120525T071500Z
DTEND;VALUE=DATE-TIME:20120525T073000Z
DTSTAMP;VALUE=DATE-TIME:20261014T101231Z
UID:indico-contribution-304-232@indico.ipb.ac.rs
DESCRIPTION:Speakers: Akos Balasko (SZTAKI)\, Gergely Windisch (Obuda Univ
 ersity - Hungary)\, Miklos Kozlovszky (OU)\nThe recently used deep sequenc
 ing techniques represent a new data processing challenge: mapping short fr
 agment reads to open-access eukaryotic genomes at the scale of several hun
 dred thousand. This problem is solvable by BLAST\, BWA and similar sequenc
 e alignment tools. BLAST is one of the most frequently used tool in bioinf
 ormatics and BWA is a relative new fast light-weighted tool that aligns ef
 fectively short sequences. Local installations of these algorithms are typ
 ically not able to handle large problem size therefore the sequence alignm
 ent process runs slowly\, while web based implementations cannot accept hi
 gh number of queries. HP-SEE infrastructure allows accessing massively par
 allel supercomputing infrastructure. With gUSE/WS-PGRADE we have created s
 uccessfully an online Bioinformatics eScience Gateway\, which is capable t
 o serve the short fragment sequence alignment demand of the regional bioin
 formatics communities within the SEE region. Using workflows we have porte
 d algorithms (BLAST and BWA) to the massively parallel HP-SEE infrastructu
 re. In this paper we describe the created Bioinformatics eScience Gateway\
 , and show as case study how we have implemented the ported BLAST workflow
  using parameter study. With our online service\, researchers can do high 
 throughput sequence alignments against the eukaryotic genomes to search fo
 r regulatory mechanisms controlled by short fragments on HP-SEE’s superc
 omputing infrastructure.\n\nhttps://events.saifa.rs/event/304/contribution
 s/232/
LOCATION:Hotel Adriatic\, Opatija Camelia 2
URL:https://events.saifa.rs/event/304/contributions/232/
END:VEVENT
END:VCALENDAR