Find these useful.
Let me tell you about something.
Distractions and amusements, with a sandwich and coffee.
This love loves love. It's a strange love, strange love.
listen; there's a hell of a good universe next door: let's go.
• go there
Thoughts rearrange, familiar now strange.
• break flowers
This love's a nameless dream.
• try to figure it out
What where am I supposed to go? Where was I supposed to know?
• get lost in questions
Tango is a sad thought that is danced.
• think & dance
Lips that taste of tears, they say, are the best for kissing.
• get cranky
Poetry is just the evidence of life. If your life is burning well, poetry is just the ash
• Spente le Stelle
Nature Methods Points of View visualization column
+ data mining
Needles in Stacks of Needles: genomics + data mining
The talk introduces genomics and cancer biology to computer scientists and outlines areas in which data mining methods are being used to further our understanding of the genome. The theme is one of complexity and relevance — computers manage the former, but we are the ultimate judges of the latter.
In 2001, the first human genome sequence was published. Now, just over 10 years later, we capable of sequencing a genome in just a few days. Massive parallel sequencing projects now make it possible to study the cancers of thousands of individuals. New data mining approaches are required to robustly interrogate the data for causal relationships among the inherently noisy biology. How does one identify genetic changes that are specific and causal to a disease within the rich variation that is either natural or merely correlated? The problem is one of finding a needle in a stack of needles. I will provide a non-specialist introduction to data mining methods and challenges in genomics, with a focus on the role visualization plays in the exploration of the underlying data.
The title of the talk was drawn from the paper
Gregory M. Cooper & Jay Shendure Needles in stacks of needles: finding disease-causal variants in a wealth of genomic data Nature Reviews Genetics 12, 628-640 (September 2011)
I will be posting a full list of references for the talk shortly.
news + thoughts
This month I look at how creating effective figures is similar to the process of writing well in the Points of View column Elements of Visual Style.
Using Strunk's Elements of Style as an example of writing guidelines, I look how these can be translated to creating figures.
When we create figures, we must communicate and design. In my talk I discuss some of the rules that turn graphical improvisation into a structured and reproducible process.
Try to focus on a spot in these posters that celebrate Pi day.
The fractal tree was created with OneZoom, which received the best poster award at the conference.
I am always drawn to type and periodically I must do something about it.
If you were a type, what type would you be? Me, Gill Sans on weekdays and Perpetua on the weekend.
I take over from Bang Wong as primary contributor to the Points of View column, a monthly advice and opinion piece about data visualization and information and figure design in molecular biology.