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 ====== Machine learning and molecular biology requirements ====== ====== Machine learning and molecular biology requirements ======
  
-These are two exemplar papers from my lab, which illustrate the extend of biology and machine learning you need to know to be successful in the Oncinfo Lab.+These are two exemplar papers from the Oncinfo Lab, which illustrate the extend of biology and machine learning you need to know to be successful here as a PhD student. The bars are lower for MSc studnets and higher for postdocs.
  
-1- If you want to join my lab, you should be able to understand at least 15% of the following paper at the time you join. By the time you graduate, you should be able to read such a paper in 3 days and understand at least 70%.+1- If you want to join Oncinfo as a PhD student, you should be able to understand at least 15% of the following paper at the time you join. By the time you graduate, you should be able to read such a paper in 3 days and understand at least 70%.
  
-Sun, Wenyan, et al. "Pathogenic tau-induced piRNA depletion promotes neuronal death through transposable element dysregulation in neurodegenerative tauopathies." Nature neuroscience 21.8 ([[https://www.nature.com/articles/s41593-018-0194-1|2018]]): 1038. Pdf attached.+Sun, Wenyan, et al. "Pathogenic tau-induced piRNA depletion promotes neuronal death through transposable element dysregulation in neurodegenerative tauopathies." Nature neuroscience 21.8 ([[https://www.nature.com/articles/s41593-018-0194-1|2018]]): 1038. [{{:wiki:public:nn2018-s41593-018-0194-1.pdf|pdf}}  ]
  
-2- During your PhD, you should write at least 2 papers like the following. You are expected to perform >90% of the data analysis, and write >80% of the text.+2- During your PhD, you should write at least 2 papers like the following. You are expected to perform >90% of the data analysis including method development and //in silico// experiments, and write >80% of the text.
  
 Foroushani, Amir, et al. "Large-scale gene network analysis reveals the significance of extracellular matrix pathway and homeobox genes in acute myeloid leukemia: an introduction to the Pigengene package and its applications." BMC medical genomics 10.1 ([[https://bmcmedgenomics.biomedcentral.com/articles/10.1186/s12920-017-0253-6|2017]]): 16. Foroushani, Amir, et al. "Large-scale gene network analysis reveals the significance of extracellular matrix pathway and homeobox genes in acute myeloid leukemia: an introduction to the Pigengene package and its applications." BMC medical genomics 10.1 ([[https://bmcmedgenomics.biomedcentral.com/articles/10.1186/s12920-017-0253-6|2017]]): 16.