From biological data to questions you can actually test.
01 / THE FIRST STUDY
A SMALL CHANGE, A BIG QUESTION
Meet your first gene.
HBB encodes beta-globin, part of the protein that carries oxygen in blood. Explore how a single DNA substitution changes its encoded amino acid.
● ● ●EVIDNA / SEQUENCE WORKBENCHPYTHON-COMPUTED DATA
DNA → CODON → PROTEINLoading
REFERENCE
GAG
Glutamate E
→
SUBSTITUTION
GTG
Valine V
01
A change in the recipe.
Loading results from the Biopython analysis…
Calculated mass change
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Estimated charge change · pH 7
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Unprocessed chain. Average mass. No heme or physical measurement.
A sequence change is an observation. Its effect on a living system needs more evidence.
Interactive sequence workbench. Results generated by the same Python engine you run locally.
RESULTS, WITH THEIR LIMITS
What the lab found.
Repeat runs. The same public inputs. The same results. Reproducibility is a first check, not a new discovery.
1,332single-base substitutions scanned
256 / 261UniProt protein annotations reproduced
9 / 9known sequence cases pass
3 / 3repeat runs agree
One gene. Six outcomes.
Predicted coding consequences. They do not establish severity, protein function, or clinical risk.
THE INTERESTING EXCEPTION
DNA is only part of the story.
Two annotations sit outside a single-base explanation. One is Hb Bristol: published research reports a DNA change encoding methionine, followed by protein processing that yields aspartate.
A sequence-only model cannot explain that final protein by translation alone. The mismatch points to the model's boundary.
Established biology from 1996. Evidna reproduced a known limitation; it did not discover this mechanism.
Median cycle: 0.721 seconds on the development Mac. Two unmatched and three complex annotations remain visible. Zero model calls in this queue. Inspect the benchmark and inputs ↗
THE SCIENTIFIC METHOD, IN THE LOOP
A hypothesis is a beginning. Evidence is the work.
AI can help ask a sharper question. It cannot turn a plausible answer into a fact. Evidna keeps the distinction visible.
# Clone the lab
git clone https://github.com/nulljosh/evidna
cd evidna
# Read the DNA. Trace the change.
uv run evidna.py analyze
# Ask the researcher and skeptic*
uv run evidna.py hypothesize
* Requires a signed-in Claude CLI. Two sequential Haiku calls. Public analysis is sent to the model.
THE HORIZON
Computational biology today. Reviewed experiments and instrument integration in the future. No physical experiments or autonomous hardware control in this release.
evidna