Physical Sciences and Mathematics Commons^™

Efficient Synergistic De Novo Co-Assembly Of Bacterial Genomes From Single Cells Using Colored De Bruijn Graph, Narjes Sadat Movahedi Tabrizi

Wayne State University Dissertations

Recent progress in DNA amplification techniques, particularly multiple displacement

amplification (MDA), has made it possible to sequence and assemble bacterial

genomes from a single cell. However, the quality of single cell genome assembly has

not yet reached the quality of normal multi-cell genome assembly due to the coverage

bias (including uneven depth of coverage and region blackout) and errors caused by

MDA. Computational methods try to mitigates the amplification bias. In this document

we introduce a de novo co-assembly method using colored de Bruijn graph,

which can overcome the problem of blackout regions due to amplification bias. The

algorithm is …

Applications Of Machine Learning In Biology And Medicine, Saied Haidarian Shahri

Wayne State University Dissertations

Machine learning as a field is defined to be the set of computational algorithms that improve their performance by assimilating data.

As such, the field as a whole has found applications in many diverse disciplines from robotics and communication in engineering to economics and finance, and also biology and medicine.

It should not come as a surprise that many popular methods in use today have completely different origins.

Despite this heterogeneity, different methods can be divided into standard tasks, such as supervised, unsupervised, semi-supervised and reinforcement learning.

Although machine learning as a field can be formalized as methods trying to …