Expertise in ‘omics, programming, and data analysis at your service.

We offer a multitude of computationally-heavy services, from large-scale analyses to common processing and analysis steps that require programming expertise. We perform the analyses on high-performance Linux computing clusters. Use the button on the right and schedule a meeting with us to discuss a project idea. We can help your project move forward with our experience in the fields of genomics, epigenomics, transcriptomics, metagenomics, metatranscriptomics, proteomics,  metabolomics and image analysis.

The expertise of our bioinformatics specialists covers several types of analyses, for example:

  • Taxonomic analyses using 16S rRNA gene, 18S rRNA gene and ITS (internal transcribed spacer) metabarcoding
  • Metagenome and pangenome analysis of water, terrestrial and host related microbiomes

  • Genome assembly and annotation of Bacteria, Archaea and Eukaryotes

  • Gene expression profiling and comparative transcriptome analysis

  • Analysis of protein-DNA interactions (CHIP-Seq, ATAC-Seq)

  • Large-scale DNA variants identification, annotation, and interpretation

  • Untargeted and Targeted metabolomics and lipidomics profiling and statistical analysis

  • Quantitative Proteomics- MS based Methods Data Analysis

  • Protein- Protein interaction Network and their functional enrichment analysis

  • Image analysis on histology slides via machine learning (digital pathology)

  • Spectral analysis of absorbance, luminescence and fluorescence

  • Data analysis for Raman microscopy

For a more detailed description of the main services that we offer, visit our Services page.

Recent works:

*equally contributing authors

  • Zoccarato, L., Sher, D., Miki, T., Segrè, D., Grossart, H.-P., 2022. A comparative whole-genome approach identifies bacterial traits for marine microbial interactions. Commun Biol 5, 276.

  • Chyra, Z., Sevcikova, T., Vojta, P., Puterova, J., Brozova, L., Growkova, K., Filipova, J., Zatopkova, M., Grosicki, S., Barchnicka, A., Jedrzejczak, W.W., Waszczuk-Gajda, A., Jungova, A., Mikulasova, A., Hajduch, M., Mokrejs, M., Pour, L., Stork, M., Harvanova, L., Mistrik, M., Mikala, G., Robak, P., Czyz, A., Debski, J., Usnarska-Zubkiewicz, L., Jurczyszyn, A., Stejskal, L., Morgan, G., Kryukov, F., Budinska, E., Simicek, M., Jelinek, T., Hrdinka, M., Hajek, R., 2021. Heterogenous mutation spectrum and deregulated cellular pathways in aberrant plasma cells underline molecular pathology of light-chain amyloidosis. Haematologica 106, 601–604.

  • Fang, L.T., Zhu, B., Zhao, Y., Chen, W., Yang, Z., Kerrigan, L., Langenbach, K., de Mars, M., Lu, C., Idler, K., Jacob, H., Zheng, Y., Ren, L., Yu, Y., Jaeger, E., Schroth, G.P., Abaan, O.D., Talsania, K., Lack, J., Shen, T.-W., Chen, Z., Stanbouly, S., Tran, B., Shetty, J., Kriga, Y., Meerzaman, D., Nguyen, C., Petitjean, V., Sultan, M., Cam, M., Mehta, M., Hung, T., Peters, E., Kalamegham, R., Sahraeian, S.M.E., Mohiyuddin, M., Guo, Y., Yao, L., Song, L., Lam, H.Y.K., Drabek, J., Vojta, P., Maestro, R., Gasparotto, D., Kõks, S., Reimann, E., Scherer, A., Nordlund, J., Liljedahl, U., Jensen, R.V., Pirooznia, M., Li, Z., Xiao, C., Sherry, S.T., Kusko, R., Moos, M., Donaldson, E., Tezak, Z., Ning, B., Tong, W., Li, J., Duerken-Hughes, P., Catalanotti, C., Maheshwari, S., Shuga, J., Liang, W.S., Keats, J., Adkins, J., Tassone, E., Zismann, V., McDaniel, T., Trent, J., Foox, J., Butler, D., Mason, C.E., Hong, H., Shi, L., Wang, C., Xiao, W., 2021. Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing. Nat Biotechnol 39, 1151–1160.

  • Narzt, M.-S.*, Pils, V.*, Kremslehner, C., Nagelreiter, I.-M., Schosserer, M., Bessonova, E., Bayer, A., Reifschneider, R., Terlecki-Zaniewicz, L., Waidhofer-Söllner, P., Mildner, M., Tschachler, E., Cavinato, M., Wedel, S., Jansen-Dürr, P., Nanic, L., Rubelj, I., El-Ghalbzouri, A., Zoratto, S., Marchetti-Deschmann, M., Grillari, J., Gruber, F., Lämmermann, I., 2021. Epilipidomics of Senescent Dermal Fibroblasts Identify Lysophosphatidylcholines as Pleiotropic Senescence-Associated Secretory Phenotype (SASP) Factors. Journal of Investigative Dermatology, Aging and the Skin: A Special Issue 141, 993-1006.e15.

  • Pils, V., Ring, N., Valdivieso, K., Lämmermann, I., Gruber, F., Schosserer, M., Grillari, J., Ogrodnik, M., 2021. Promises and challenges of senolytics in skin regeneration, pathology and ageing. Mechanisms of Ageing and Development 200, 111588.

  • Pils, V., Terlecki-Zaniewicz, L., Schosserer, M., Grillari, J., Lämmermann, I., 2021. The role of lipid-based signalling in wound healing and senescence. Mechanisms of Ageing and Development 198, 111527.

  • Ionescu, D., Zoccarato, L., Zaduryan, A., Schorn, S., Bizic, M., Pinnow, S., Cypionka, H., Grossart, H.-P., 2020. Heterozygous, Polyploid, Giant Bacterium, Achromatium, Possesses an Identical Functional Inventory Worldwide across Drastically Different Ecosystems. Molecular Biology and Evolution 38, 1040–1059.

  • Kumari, S., Subramanya, H.S., 2020. Network pharmacology study of Curcuma longa L.: potential target proteins and their functional enrichment analysis. BMC Research Notes 13, 468.

  • Celussi, M.*, Quero, G.M.*, Zoccarato, L.*, Franzo, A., Corinaldesi, C., Rastelli, E., Lo Martire, M., Galand, P.E., Ghiglione, J.F., Chiggiato, J., Coluccelli, A., Russo, A., Pallavicini, A., Fonda Umani, S., Del Negro, P., Luna, G.M., 2018. Planktonic prokaryote and protist communities in a submarine canyon system in the Ligurian Sea (NW Mediterranean). Progress in Oceanography 168, 210–221.

  • Kumari, S., Singh, A., 2018. Urinary Exosomal Lipidomics Reveals Markers for Diabetic Nephropathy. Current Metabolomics 6, 131–139.

  • Vojta, P., Kokáš, F., Husičková, A., Grúz, J., Bergougnoux, V., Marchetti, C.F., Jiskrová, E., Ježilová, E., Mik, V., Ikeda, Y., Galuszka, P., 2016. Whole transcriptome analysis of transgenic barley with altered cytokinin homeostasis and increased tolerance to drought stress. N Biotechnol 33, 676–691.