DNA Ghost:

This note based blog covers bioinformatics and cancer genomics 

August 28, 2017

Ghost wanna share a good video illustrating how immunotherapy works.

Immunoediting

Battle between tumor and immune system is a equilibrium phrase that can last years. This dynamic process consists of immunosurveillance and tumor progression.

During immunosurveillance, imm...

August 28, 2017

First, a figure shows why targeted therapy is, in certain circumstance, slightly better than chemo. Of course still less competitive than immunotherapy which will be discussed in the another topic.

In terms of toxicity:

Chemo targets all the fast growing cells and theref...

August 26, 2017

Figure below summarizes sources of some duplicate types:

Here Ghost gonna focus on the most common type: PCR duplicates and talk about how to treat them in several sequencing type data. 

Where PCR duplicates come from and why do we care?

They are introduced when the...

August 25, 2017

Roughly, RNA-Seq may have the following bias sources:

  • Random priming

  • PolyA selection (3’ bias) and ribosomal depletion

  • PCR duplicates

  • Normal cell contamination (when evaluating tumor)

  • Tumor purity

  • Batch effect

Random priming

Appears at firs...

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