Project description:This RNA-seq is a part of the paper describing the role of PIN5 in generating auxin sinks. https://www.biorxiv.org/content/10.1101/2024.01.24.576992v1
Project description:These files represent single cell RNA-Seq data generated on a 10x Chromium genomics platform from bioprinted iPSC-derived human kidney organoids differentiated according to our published protocol (Takasato et al., Nature Protocols 2016). The data contains >2000 cells that passed our QC. Data was used to confirm that bioprinted organoids contain a similar cellular composition as standard manually produced organoids - See https://www.biorxiv.org/content/10.1101/505396v1.
Project description:Identification of the gene differentially expressed with and without a non-sense mutation in YAK1 gene. This analysis provided a better understanding of the mechanism underlying variants affecting differently mRNA and protein abundance of genes in TRANS. Data used in the preprint: https://www.biorxiv.org/content/10.1101/2020.07.02.185413v1
Project description:This submission contains the data from https://www.biorxiv.org/content/10.1101/795047v2.full This dataset contains processed data of cell-free reduced representation bisulfite sequencing from 60 pediatric cancer samples, in order to classify them according to histopathological diagnosis. Files are provided in bismark coverage format. Samples were sequenced on a NextSeq 500.
Project description:(i) RNA transcripts of Raji iBZLF1 cells (https://www.biorxiv.org/content/10.1101/573659v1) were compared between non-induced cells and cells induced with doxycycline (100 ng/ ml) for 6 h. Human (Hg19) as well as viral (EBV, Raji KF717093.1) transcripts were analyzed. Artificial ERCC Spike-ins (Thermo Scientific) were added to selected samples to control for global changes of RNA levels. (ii) For control purposes, the RNA transcripts in Raji cells equipped with a doxycycline-controlled truncated BZLF1 allele lacking its transactivation domain (Raji iBZLF1 AD-truncated) were prior to and after induction for 6 h. (iii) For another control, the RNA transcripts of parental, unmodified Raji cells were analyzed prior to and after doxycycline induction for 6 h. All experiments were performed as triplicates.
Project description:Using MethylC-Seq to provide single-base resolution of DNA methylation status in idm2 single mutant and idm1idm2 double mutant MethylC-Seq: 2 mutants examined, idm2 single mutant (two biological replicates) and idm1idm2 double mutant
Project description:Manuscript Title: Pyochelin biotransformation shapes bacterial competition LC-MS/MS analysis of P. aeruginosa interaction with S. aureus wildtype, fhuG mutant and fhuD1/D2 double mutant.
Project description:Glycopeptide analysis of trypsin, chymotrypsin and alpha-lytic protease digests from SARS-CoV-2 Spike expressed in HEK 293F cells. https://www.biorxiv.org/content/10.1101/2020.03.26.010322v1