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Her recent work focuses on novel algorithms for sequence analysis. This research has many applications in functional genomics: fold and function assignment, for example.
During her fellowship year, she will develop novel concepts to improve algorithms for pattern discovery from biological sequences. Asserting that the capacity of a protein to carry out a function is encoded in conserved sequence patterns, Holm aims to derive a global decomposition of the protein universe into protein families and conserved sequence motifs that characterize them. The project will exploit a unique data structure, the global trace graph, which organizes all protein sequences into hypothetical multiple sequence alignments. The application of the algorithms to large-scale data sets would significantly advance the mapping of functional networks in the cell.
During her fellowship year, she will develop novel concepts to improve algorithms for pattern discovery from biological sequences. Asserting that the capacity of a protein to carry out a function is encoded in conserved sequence patterns, Holm aims to derive a global decomposition of the protein universe into protein families and conserved sequence motifs that characterize them. The project will exploit a unique data structure, the global trace graph, which organizes all protein sequences into hypothetical multiple sequence alignments. The application of the algorithms to large-scale data sets would significantly advance the mapping of functional networks in the cell.
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Marjaana Pussila, Aleksi Laiho,Petri Törönen, Pauliina Björkbacka,Sonja Nykänen,Kirsi Pylvänäinen,Liisa Holm,Jukka-Pekka Mecklin,Laura Renkonen-Sinisalo,Taru Lehtonen,Anna Lepistö,Jere Linden,
Marjaana Pussila, Aleksi Laiho,Petri Törönen, Pauliina Björkbacka,Sonja Nykänen,Kirsi Pylvänäinen,Liisa Holm,Jukka-Pekka Mecklin,Laura Renkonen-Sinisalo,Taru Lehtonen,Anna Lepistö,Jere Linden,
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Jurgita Paukstyte, Rosa Maria Lopez Cabezas,Yuehan Feng,Kai Tong, Daniela Schnyder,Ellinoora Elomaa,Pavlina Gregorova,Matteo Doudin,Meeri Sarkka,Jesse Sarameri,Alice Lippi,Helena Vihinen,
Applied Computing and Intelligenceno. 1 (2022)
PLOS Computational Biologyno. 6 (2022): e1010249-e1010249
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