Laboratory of Bioinformatics

Dr. Anna Philips

Kierownik Pracowni

aphilips@ibch.poznan.pl
Phone: 

 

Dr. habil. Tadeusz Kuliński

profesor instytutu

Dr. Natalia Szóstak

adiunkt

Dr. Nicoletta Makowska

adiunkt

Dr. Dorota Magner

asystent

Dr. Joanna Szarzyńska

starszy specjalista biolog

Dr. Aneta Sawikowska

starszy specjalista biolog

Researchers:

Dr. habil. Małgorzata Oczko-Wojciechowska

area expert

Technical Staff:

  • Philips A, Stolarek I, Handschuh L, Nowis K, Juras A, Trzciński D, Nowaczewska W, Wrzesińska A, Potempa J, Figlerowicz M. Analysis of oral microbiome from fossil human remains revealed the significant differences in virulence factors of modern and ancient Tannerella forsythia. BMC Genomics. 2020 Jun 15;21(1):402. doi: 10.1186/s12864-020-06810-9.

  • Makowska N, Philips A, Dabert M, Nowis K, Trzebny A, Koczura R, Mokracka J. Metagenomic analysis of β-lactamase and carbapenemase genes in the wastewater resistome. Water Res. 2020 Mar 1;170:115277. doi: 10.1016/j.watres.2019.115277. Epub 2019 Nov 7.

  • Czubak K, Taylor K, Piasecka A, Sobczak K, Kozlowska K, Philips A, Sedehizadeh S, Brook JD, Wojciechowska M, Kozlowski P. Global Increase in Circular RNA Levels in Myotonic Dystrophy. Front Genet. 2019 Jul 18;10:649. doi: 10.3389/fgene.2019.00649. eCollection 2019.

  • Stolarek I, Juras A, Handschuh L, Marcinkowska-Swojak M, Philips A, Zenczak M, Dębski A, Kóčka-Krenz H, Piontek J, Kozlowski P, Figlerowicz M. A mosaic genetic structure of the human population living in the South Baltic region during the Iron Age. Sci Rep. 2018 Feb 6;8(1):2455. doi: 10.1038/s41598-018-20705-6.

  • Jackowiak P, Hojka-Osinska A, Philips A, Zmienko A, Budzko L, Maillard P, Budkowska A, Figlerowicz M. Small RNA fragments derived from multiple RNA classes - the missing element of multi-omics characteristics of the hepatitis C virus cell culture model. BMC Genomics. 2017 Jun 30;18(1):502. doi: 10.1186/s12864-017-3891-3.

  • Philips A, Stolarek I, Kuczkowska B, Juras A, Handschuh L, Piontek J, Kozlowski P, Figlerowicz M. Comprehensive analysis of microorganisms accompanying human archaeological remains.  Gigascience. 2017 Jul 1;6(7):1-13. doi: 10.1093/gigascience/gix044.

 

Selected publications

  • Polish Microbiome Map - NCRD

Research activity

NGS:

  • Analysis of differential gene expression

  • Analysis of differential expression of transcripts (alternative splicing)

  • Assembly of transcriptomes ab initio (based on genome) and de novo (without genome sequence) and their annotation

  • Identification of new genes and splicing forms

  • Analysis of non-coding RNAs (miRNA, piRNA, circRNA ect.)

  • Identification of miRNA target sequences

  • SNP identification

  • CNV identification

  • Analysis of WGS, exons (Exome-Seq) and selected genes (targeted sequencing)

  • De novo assembly of genomes and their annotation

  • Metagenomics analyses

Structure modeling:

  • Modeling 3D structures of proteins and nucleic acids; introducing modifications,

  • Thermodynamic analyzes

  • Docking of ligands to proteins / RNA

  • RNA structure prediction from NGS data

Other:

  • Data mining

  • Statistical analyses

  • Analysis of biological data in Python and Bioconductor (R language)

Offer

  • Computers with high computing power

  • Computing cluster

Equipment

  • NGS

  • WGS

  • RNA-seq

  • DE

  • Metagenomics

  • Transcriptomics

  • SNP

  • CNV

  • PCA

  • Docking

  • Structure Modeling

Keywords

Research Projects

Media Społecznościowe

Strona zrobiona w kreatorze stron internetowych WebWave

Cooperation

Institute of Bioorganic Chemistry,
Polish Academy of Sciences
Z. Noskowskiego 12/14
61-704 Poznań
tel centrala: (+48) 61 852 85 03
fax: (+48) 61 852 05 32
e-mail: ibch@ibch.poznan.pl

Sekretariat Dyrektora, tel: 61 852 89 19

Adress