WWU Münster UKM
"The new uORFdb: integrating literature, sequence, and variation data in a central hub for uORF research” by Felix Manske, Lynn Ogoniak, Norbert Grundmann and Wojciech Makałowski has been published by Nucleic Acids Research.
"A Map of 3' DNA Transduction Variants Mediated by Non-LTR Retroelements on 3202 Human Genomes” by Reza Halabian and Wojciech Makałowski has been published by Biology.
"paPAML: An Improved Computational Tool to Explore Selection Pressure on Protein-Coding Sequences" by Lynn Ogoniak, Norbert Grundmann and others
"Mobilome of Apicomplexa Parasites" by Rodriguez and Makalowski has been published by Genes.
"Software evaluation for de novo detection of transposons" by Rodriguez and Makalowski has been published by Mobile DNA.
"From telomere to telomere: The transcriptional and epigenetic state of human repeat elements” by T2T consortium has been published by Science.
"Global research alliance in infectious disease: a collaborative effort to combat infectious diseases through dissemination of portable sequencing” by GRAID consortium that IoB is part of has been published by BMC Research Notes.
Congratulations to Reza and Matias on the excellent contribution on TE-driven DNA transductions in the human genome
"Somatic Functional Deletions of Upstream Open Reading Frame-Associated Initiation and Termination Codons in Human Cancer" was published by MDPI

Anna Neumann

Cancer is one of the most common causes of death world wide and in most cancer patients metastasis is the main cause of death. Osteosarcoma (OS) is the most common primary malignancy of bone, with up to 80% of patients suffering from metastasis or micrometastatic disease at the time of diagnosis. For the metastatic potential of tumours invasiveness plays an important role. The focus of this study is to determine new candidate genes for invasiveness. For that OS cell lines are analysed using a modified Boyden Chamber assay to separate invasive and non-invasive cells. After that total RNA of both fractions is analysed by Illumina hybridisation Arrays (V3 bead arrays). Pair wise comparison (using an S-Plus based evaluation pipeline) yield stable differently expressed genes between invasive and non-invasive cells. These genes are involved in pathways such as cell motility, cell communication or signal transduction. Therefore these candidate genes a) support the established experimental model for metastasis of OS cells and b) give strong clues for a core pattern of metastasis related genes. For functional characterization a combination of knock-down experiments (RNAi) and invasion assay is used. To validate the results RT-PCR and immunohistochemistry on a larger sample using OS-TMAs is processed. Determined genes and pathways are correlated with clinical parameters like metastasis, survival and chemotherapy sensitivity in order to improve the understanding of the biology of OS.

2020-08-05 19:54