How History affects Pattern Matching inside the Genome · 22 July 08

Finding fellow bottom feeders · 11 June 08

How to build a cathedral door out of 456 proteins · 13 March 08

Wicked Approximations: proteins move like a network of springs · 19 February 08

How to avoid futility: a guide to parameterizing non-standard amino acids in AMBER · 7 February 08

Interview Me · 4 February 08

Coding randomness not so naïvely · 8 December 07

Poking my eyes out with Amber, again · 3 December 07

asa.py - accessible surface area · 23 November 07

match.py - calculating the RMSD of PDB structures · 19 November 07

Calculating the solvent Accessible Surface Area (ASA) · 19 October 07

Parsing PDB files: sometimes you really should reinvent the wheel · 1 October 07

Grilling Juicy Steaks: The Best Introduction to Salt Effects in Cell Biology I have Ever Read · 16 September 07

A Most Ugly Hack: translating from CHARMM to AMBER trajectories · 12 August 07

Fetching PDB files remotely in pure Python code · 10 August 07

The Schrodinger Equation in Action · 9 May 07

Wet Holes in the Membrane · 9 May 07

Dragging an ion through the nicotonic channel · 8 May 07

Seeing a carbon-monoxide molecule escaping from the clutches of the Myoglobin protein · 8 May 07

Beautiful movies of X-ray Crystallography Refinement · 7 May 07

A Sign, a Flipped Structure, and a Scientific Flameout of Epic Proportions · 21 March 07

Notes to a young computational biologist · 13 March 07

Heating up a Protein, One residue at a time · 11 February 07

Simulating a very small peptide: enkephalin · 25 January 07

Come together, electrostatically, as one · 31 December 06

Looking at the surface of a membrane · 30 December 06

What is a molecule? · 13 November 06

Structural features of the Beta-sheet · 23 September 06

The Mysterious Regions of the Ramachandran Plot · 7 August 06

Why AMBER sticks a finger in its users eyes. · 14 July 06

Of proteins, clusters and musical chairs · 5 October 05

Transcription as Compilation · 24 September 05

We can fold it for you wholesale · 12 June 04

RMSD: Root Mean Square Deviation · 31 December 69

The Ten Commandments of Protein Folding · 7 August 08