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Pygmy mouse may refer to:

Baiomys, a North American genus:
- Northern pygmy mouse (Baiomys taylori)
- Southern pygmy mouse (Baiomys musculus)
Nannomys, an African subgenus:
- Desert pygmy mouse (Mus indutus)
- African pygmy mouse, South African Pygmy Mouse, or just Pygmy Mouse (Mus minutoides)
- Subsaharan pygmy mouse (Mus musculoides)
- Free State pygmy mouse (Mus orangiae)
- Setzer's pygmy mouse (Mus setzeri)
- Thomas's pygmy mouse (Mus sorella)
- Gray-bellied pygmy mouse (Mus triton)
Pygmy mouse (mutant) (pg), a mutant strain of the laboratory mouse

This disambiguation page lists articles associated with the title Pygmy mouse.
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