ICGC data download

ftp://data.dcc.icgc.org/

ftp://data.dcc.icgc.org/current/Pancreatic_Cancer-QCMG-AU/

How to run on interactive node

screen
I5
RUN_YOUR_CMD
close the window

qsub shortcut

alias I10='qsub -I -l walltime=48:0:0,mem=10gb -q batch'

alias I15='qsub -I -l walltime=48:0:0,mem=15gb -q batch'

alias I5='qsub -I -l walltime=48:0:0,mem=5gb -q batch'

alias I='qsub -I -l walltime=48:0:0 -q batch'

On the Subtyping of Cancers

Mes, Pro, and Meta.

proliferative ki-67

http://en.wikipedia.org/wiki/Ki-67_(protein)

The Ki-67 protein (also known as MKI67) is a cellular marker for proliferation.^[5] It is strictly associated with cell proliferation. During interphase, the Ki-67 antigen can be exclusively detected within the cell nucleus, whereas in mitosis most of the protein is relocated to the surface of the chromosomes. Ki-67 protein is present during all active phases of the cell cycle (G₁, S, G₂, and mitosis), but is absent from resting cells (G₀).

My paper is highlighted by Gastroenterology Editorial

My paper, "Identification of molecular subtypes of gastric cancer with different responses to PI3-kinase inhibitors and 5-fluorouracil",
http://www.sciencedirect.com/science/article/pii/S0016508513007221
is highlighted by Gastroenterology Editorial:

Expanding the Lauren Classification: A New Gastric Cancer Subtype?
http://www.sciencedirect.com/science/article/pii/S0016508513010706
https://dl.dropboxusercontent.com/u/62547840/GastroenterologyEditorial.pdf

Extract specific rows from a file

 cat CCI_DrugFile_trimmed.csv |  awk ' NR >= 297652 && NR <= 298124 {print }'>row297652to298124.txt