RATIONAL APTAMER DISCOVERY · v1

From protein target to binding candidate, in an afternoon

Omnira generates aptamer pools against any protein target — filtered by thermodynamics, scored by NVIDIA Boltz-2, ranked by interface geometry. No SELEX. No wet bench. No code.

Request access → ↓ See the procedure

[NVIDIA]Boltz-2

[AlphaFold]Multimer

[PDB]RCSB

01· MODALITIES

Four kinds of binders. One notebook.

Most discovery platforms commit you to one chemistry. Omnira lets you compare DNA, RNA, peptide and small-molecule candidates against the same target — side-by-side, in the same procedure.

01 · DNA APTAMER

Live

Single-strand DNA binders

Folded ssDNA against any protein target. Boltz-2 complex prediction.

OUTPUT · 24 ranked, signed

02 · RNA APTAMER

Beta

Single-strand RNA scaffolds

Three-way junction & pseudoknot folds. Ribose backbone, U pairing.

OUTPUT · shortlist

03 · PEPTIDE

Beta

Linear peptide ligands

6–14 residue chains scored against an interface pocket.

OUTPUT · top motifs

04 · SMALL MOLECULE

Soon

Fragment-based scaffolds

Ligand fragment library docked & rescored. Friendly chemistry.

OUTPUT · in development

02· PROCEDURE

Generate. Filter. Fold. Rank.

A single computational pipeline replaces six weeks of SELEX. Each candidate is filtered by thermodynamics, folded against the target by NVIDIA Boltz-2, then ranked by interface geometry before reaching your bench.

01 GENERATE

Sample 10⁶ candidates

Random or templated 30-nt single strands against your target.

OUTPUT · 1,000,000 seq

02 FILTER

ΔG thermodynamic cut

Discard high-energy folds. Keep the top thermodynamically promising.

OUTPUT · top 0.5 %

03 FOLD

Boltz-2 complexes

NVIDIA Boltz-2 predicts every candidate · target complex in 3D.

OUTPUT · 5,000 complexes

04 RANK

Score & export

Score by H-bonds, electrostatics, contact area. Export the top N.

OUTPUT · 24 ranked

03· CYCLE TIME

From six weeks of SELEX to a same‑afternoon shortlist.

247×

faster than wet-lab SELEX,
at 1/40th the cost.

SELEX · wet lab ~42 days

PoolCyc 1Cyc 2Cyc 3 Cyc 4Cyc 5SeqValidate

OMNIRA · in silico ~4 hours

Generate · Filter · Fold · Rank

04· FIELD STUDY

Validated at the bench.

Microdrop builds portable diagnostic devices. They needed a way to design specific aptamers for new assay targets without scaling up their wet lab. Omnira is that tool.

CASE · MICRODROP

A C-reactive protein biosensor, designed in an afternoon.

One researcher. No programming. No synthesis batch wasted. Three of the top‑10 ranked DNA aptamers passed wet-lab validation on the first round — K_d in the single-digit nanomolar range.

3 / 10

passed validation

6.4 nM

top hit K_d

#id ΔG B‑2 wet

1 ★ apt-038 -12.8 0.94 pass

2 apt-104 -11.6 0.89 pass

3 apt-217 -10.9 0.83 pass

4 apt-302 -10.2 0.78 fail

5 apt-419 -9.7 0.74 fail

05· EARLY ACCESS

Stop screening. Start designing.

Omnira is in private beta with biotech and diagnostics teams. Tell us about your target and we'll get you running this week.

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