D E Shaw Research
  1. Core Technologies
  2. Who We Are
  3. Drug Discovery
  4. Joining Us

We are D. E. Shaw Research.

We build paradigm‑shifting computational technologies to reshape the process of drug discovery.

Core Technologies

Central to much of our work is a special‑purpose supercomputer called Anton, which we designed and constructed to vastly accelerate the process of molecular dynamics simulation.

1.1

Molecular dynamics simulations

An ultra‑high‑resolution window on the motion and interactions of biological molecules. The physical forces acting on each atom are repeatedly calculated and all resulting atomic movements are tracked in detail over a period of time, providing what amounts to a “computational microscope.”

1.2

Special‑purpose supercomputers

Three generations of Anton machines have thus far been developed, each of which has executed biological MD simulations roughly 100 times faster than the fastest general‑purpose supercomputers of its day. Anton systems have twice been awarded the Gordon Bell Prize.

1.3

New applications of machine learning

Anton is sometimes used to generate data that is in turn used to train a neural network, while in other cases, machine learning methods are used to dramatically expand the number of potential drug compounds that can be evaluated using a given amount of Anton time.

Who We Are

The mission of D. E. Shaw Research is intrinsically interdisciplinary.

Its successful realization requires the coordinated efforts of individuals with backgrounds in a number of different scientific and technical fields. Many of our most significant accomplishments are attributable to advances that lie within the overlaps among these areas. Although some members of our team already had a background in more than one of these fields when they joined us, most have acquired their “multilingual” capabilities in the course of working with other members of the team.

  1. aComputer architecture and engineering
  2. bComputer science and machine learning
  3. cComputational biology, chemistry, physics
  4. dDrug discovery and development
BPTI · PDB 5PTI · 58 residues · 454 heavy atoms
unfolded
Q 0.00  Rg 0.0 Å
Q(t)
Drag any atom. Let go.

Fig. 1 — BPTI (PDB 5PTI), the protein simulated for one millisecond in the 2010 Science paper, shown as a toy model folding toward its crystal structure. An illustration, not an Anton trajectory.

Science · 15 October 2010

In 2010 we published a paper in the journal Science describing our use of Anton‑based MD simulations of unprecedented length to provide answers to several longstanding questions regarding the structural dynamics of proteins and the process of protein folding. The findings were named by the journal as one of the 10 most significant scientific breakthroughs of the year, and the paper became the most‑cited publication in the field of chemistry during the months of July and August 2011.

David E. Shaw · SC23 Test of Time Award talk, “Millisecond‑scale molecular dynamics simulations on Anton” · 55 min

Drug Discovery

Our research, technologies, and pharmaceutical expertise have each played an important role in bringing eight drugs into clinical trials.

We designed four of these drugs independently; the other four were discovered under a multi‑target collaboration and licensing agreement with Relay Therapeutics, a separate company of which D. E. Shaw Research was a co‑founder.

CompoundTargetUnder study forOrigin
DES‑9384TRPA1Neuropathic pain, chronic back pain, chronic coughIndependent
DES‑7987KCa3.1Asthma, ischemic stroke, lung fibrosisIndependent
DES‑1357WRNColorectal, endometrial, gastric cancersIndependent
RLY‑4008FGFR2Cholangiocarcinoma, solid tumorsWith Relay
RLY‑2608PI3KαBreast cancer, solid tumors, vascular malformationsWith Relay
RLY‑8161NRASNRAS‑mutant melanoma, solid tumorsWith Relay

Clinical‑stage drugs. All of our computational work is performed in‑house; we do not maintain wet‑lab facilities, but routinely design experiments for execution under our direction by specialized contract research organizations.

Joining Us

We welcome inquiries from exceptionally capable candidates at all levels of experience, and offer a stimulating, intellectually rigorous work environment that is also supportive, flexible, and welcoming.

We’re open to considering highly qualified applicants even if none of the positions for which we’re currently recruiting seems like an immediate match.

Send a CV or résumé to Želimir Galjanić Summer internships ↗ D. E. Shaw Research, LLC is an equal opportunity employer.