• ideas4biology.com               Analysis of biological data

  • ideas4biology.com                Bioinformatics courses

  • ideas4biology.com                Biological databases




We have a new publication: Szcześniak MW, Makałowska I (2016) lncRNA-RNA Interactions across the Human Transcriptome. PLoS One. 2016 Mar 1;11(3):e0150353. doi: 10.1371/journal.pone.0150353. eCollection 2016.


We have a new publication: Conesa A, Madrigal P, Tarazona S, Gomez-Cabrero D, Cervera A, McPherson A, Szcześniak MW, Gaffney DJ, Elo LL, Zhang X, Mortazavi A (2016) A survey of best practices for RNA-seq data analysis. Genome Biol. 2016 Jan 26;17(1):13. doi: 10.1186/s13059-016-0881-8.


We have a new publication: Szcześniak MW, Rosikiewicz W, Makałowska I (2016) CANTATAdb: A Collection of Plant Long Non-Coding RNAs. Plant Cell Physiol. 2016 Jan;57(1):e8. doi: 10.1093/pcp/pcv201. Epub 2015 Dec 12.


dr Michał Szcześniak started his post-doc at Max Delbrück Center for Molecular Medicine, group. of prof. Uwe Ohler.


We have a new publication: Kabza M, Kubiak MR, Danek A, Rosikiewicz W, Deorowicz S, Polański A, Makałowska I. (2015) Inter-population Differences in Retrogene Loss and Expression in Humans. PLoS Genet. 2015 Oct 16;11(10):e1005579. doi: 10.1371/journal.pgen.1005579. eCollection 2015.


Joanna Ciomborowska attended a course Introduction to Genomic Data Analysis Using HapMap and 1000 Genomes Projects at Institut Català de Paleontologia (Sabadell, Spain).


We are happy to inform that ideas4biology Sp. z o.o. is part of consortium that became laureate of STRATEGMED competition from National Centre for Research and Development in the area of Prevention and treatment of civilization diseases.


Our company is now converted into Ltd company (limited liability company) called ideas4biology Ltd. Polish version: ideas4biology Sp. z o.o.


We have a new paper published:
Kaja E, Szcześniak MW, Jensen PJ, Axtell MJ, McNellis T, Makałowska I (2014) Identification of apple miRNAs and their potential role in fire blight resistance. Tree Genetics & Genomes 11:812


We run a custom bioinformatics course entitled Next-generation sequencing in analysis of prokaryotic genomes and transcriptomes, Faculty of Biology, Gdansk University.


Izabela Makałowska was nominated professor by Polish president Bronisław Komorowski.


Izabela Makałowska and Michał Szcześniak received a 3rd degree award from the president of Adam Mickiewicz University in Poznań.


BIO2014 congress in Warsaw: ideas4biology had a lecture entitled Caveats of next generation sequencing data analysis (or why you need a bioinformatician).


Joanna Ciomborowska received a PhD title in Biology - Bioinformatics.


We have a new publication: "RetrogeneDB--A Database of Animal Retrogenes" by Michał Kabza, Joanna Ciomborowska and Izabela Makałowska.


Izabela Makałowska received grant (OPUS) from National Science Centre


Michał Szcześniak and Joanna Ciomborowska are laureates of START scholarship from Foundation for Polish Science.


Dr Michał Szcześniak started an internship at National Center for Biotechnology Information, Bethesda, MD, USA.


Publication of Michal Szczesniak Ph.D. and Izabela Makalowska Ph.D. was released. Szczesniak MW, Makalowska I. miRNEST 2.0: a database of plant and animal microRNAs. Nucleic Acids Res. 2014 Jan 1;42(1):D74-7, PMID:24243848


Publication which is co-authored by Wojciech Rosikiewicz M.Sc. was released. Szöllõsi GJ, Rosikiewicz W, Boussau B, Tannier E, Daubin V. Efficient exploration of the space of reconciled gene trees. Syst Biol. 2013 Nov;62(6):901-12., PMID:23925510


Elzbieta Kaja and Michal Kabza has received "Preludium" pre-doctoral grants from the National Science Centre.


Wojciech Rosikiewicz has received distinction in the contest for the "The best master's degree thesis in bioinformatics", organised by PTBI.


We opened registration for Bioinformatics of the next-generation sequencing.


Poznan Summer School of Bioinformatics was held.


The course Bioinformatics of the next-generation sequencing was held.


Due to the limit of the places we closed registration the course Bioinformatics of the next-generation sequencing scheduled for August 9, 2013.


The course Bioinformatics of the next-generation sequencing was held.
Thank you and congratulations for the participants!


Publication which is co-authored by Michal Szczesniak M.Sc. and Izabela Makalowska Ph.D. was released Szcześniak M, Yoneda M, Sato H, Makałowska I, Kyuwa S, Sugano S, Suzuki Y, Makałowski W, Kai C. Characterization of the mitochondrial genome of Rousettus leschenaulti. Mitochondrial DNA. 2013 Jul 2. PMID: 23815317


Applications of Joanna Ciomborowska M.Sc. and Elzbieta Kaja M.Sc. were recommended for funding by the project: "Support for doctoral scholarship in the fields that are considered strategic from the point of view of the Great Poland" (8.2.2 PO KL). Project is co-financed by the European Union under the European Social Fund.


Due to the limit of the places we closed registration the course Bioinformatics of the next-generation sequencing scheduled for July 16, 2013.


Registration for the course Bioinformatics of the next-generation sequencing, which will be held July 16, 2013, has been opened.


Elzbieta Kaja M.Sc. has begun a four-month research fellowship at Department of Plant Pathology, Penn State University in State College, USA


Michal Szczesniak M.Sc. received his Ph.D. in the field of biology, specializing in biotechnology - bioinformatics.


Joanna Ciomborowska M.Sc. was the winner of the first edition of the competition organized by Polish Academy of Sciences in Poznan for the best original work published by PhD candidate in 2012 in the area of biology and agriculture. The awarded publication: Ciomborowska et al. "Orphan" retrogenes in the human genome. Mol Biol Evol. 30(2):384-96


Registration for the tenth edition of Poznan Summer School of Bioinformatics, co-organized by our team, has been open. You are welcome!



Publication co-authored by Michal Szczesniak M.Sc. and Izabela Makalowska Ph.D. was released. Gudys A., Szczesniak MW., Sikora M., Makalowska I., HuntMi: an efficient and taxon-specific approach in pre-miRNA identification., BMC Bioinformatics, 2013 Mar 5;14(1)83


Publication co-authored by Elzbieta Kaja M.Sc. was released. Kruszka K., Pacak A., Swida-Barteczka A., Stefaniak AK., Kaja E., Sierocka I., Karlowski W., Jarmolowski A., Szweykowska-Kulinska Z., (2013) Developmentally regulated expression and complex processing of barley pri-microRNAs. BMC Genomics. 2013 Jan 16;14:34


Publication co-authored by Michal Szczesniak M.Sc., Michal Kabza MSc and Izabela Makalowska PhD was released. Szczesniak MW., Kabza M., Pokrzywa R., Gudys A., Makalowska I., ERISdb: a database of plant splice sites and splicing signals., Plant & cell physiology, 2013 Feb;54(2)e10


Publication co-authored by Joanna Ciomborowska M.Sc., Wojciech Rosikiewicz M.Sc. and Izabela Makalowska Ph.D. was released. Ciomborowska J., Rosikiewicz W., Szklarczyk D., Makalowski W., Makalowska I., "Orphan" retrogenes in the human genome., Molecular biology and evolution, 2013 Feb;30(2)384-96


Michal Szczesniak M.Sc. has begun a three-month research fellowship in Laboratory of Functional Genomics, Department of Medical Genome Sciences, University of Tokyo, Japan