Signal Processing Department - Tampere University of Technology
August 2015
to December 2015
Internship
Tampere
Finland
Prediction of cancer patient's pathological stage by using TCGA's RNASeq gene expression level data, with random forest method and neural network deep learning method
Method development for finding the optimal topology of the neural network deep learning method such as the model's prediction results will be more accurate than the random forest method
Integration of copy number data into the prediction model
Institute of Molecular Life Sciences - University of Zurich
February 2015
to June 2015
Full-time
Zurich
Switzerland
Research for methods discovering the copy number alteration (CNA) patterns in cancer array-based data
Integration of Database of Genomic Variants (DGV) and CNV map data in the method development
Understand the limits of using array-based data for copy number alteration analysis
Analysis on genes and pathways affected by CNAs
Detailed Description
Use of pathway over-representation analysis for cancer classification
Gene annotations with BioMart and R packages (based on UCSC annotations)
Company Description
The focus of the laboratory's research is the analysis of structural variations in cancer genomes by computational genomics, including bioinformatics and systems biology methods. Their work centers around our collection of genomic tumor data, assembled from copy number screening experiments in cancer. Specific projects deal with the development of computational methods for cancer genome data analysis, genomic aberration analysis in specific tumor entities as well as large scale exploration of imbalance patterns in malignancies.
CNRS(French National Centre for Scientific Research) UMR(Mixed Research Unit) 7622, Paris, France
June 2013
to August 2013
Internship
Paris
France
C.elegans cultivation and breeding
Immunofluorescent slide staining (IF)
Image processing (with ImageJ software)
Macro development for repeating image processing
Click on "PORTFOLIOS" for resulting image examples made for article publication
Publication: Sperm-inherited organelle clearance in C.elegans relies on LC3-dependent autophagosome targeting to the pericentrosomal area (www.ncbi.nlm.nih.gov/pubmed/25922527)
Click on "Learn more" for futher details ↓↓
Detailed Description
Synthesizing and presentation of the laboratory's latest results
ImageJ : macro (in Java) for repeating image projections, image rotations, brightness and contrast application, savings, etc )
ImageJ : 3D image construction
ImageJ & Prism : cell fluorescent signals quantification (comparison between mutants and wt)
ImageJ : hyperstack channel merging
Company Description
At the heart of Paris, the Developmental Biology Laboratory (LBD) contains numerous research teams all studying animal embryology. Among them, Mr.Vincent Galy's lab is recently interested in the degradation of paternal organites by allogaphy, a phenomenon occurring during the first minutes of Caenorhabditis elegans' embryonic life.
