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Aceleración de minimap2 para la alineación de genomas completos

Ghanshyam Chandra¹, Md Vasimuddin², Sanchit Misra²

¹Department of Computational and Data Sciences, Indian Institute of Science, Bangalore, 560012, KA, India.

Bioinformatics (Oxford, England)

|February 19, 2026

Resumen

Este resumen es generado por máquina.

El nuevo software de alineación de genomas completos, mm2-plus, mejora la eficiencia de los datos de secuenciación de lectura larga. Acelera la alineación optimizando el uso de la CPU, lo que conduce a resultados más rápidos sin sacrificar la precisión.

Palabras clave:

alineación de genomas completos secuenciación de lectura larga minimap2 mm2-plus bioinformática genómica optimización de CPU

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Área de la Ciencia:

Genómica
Bioinformática

Sus antecedentes:

La secuenciación de lectura larga genera secuencias de ADN grandes que abarcan cromosomas.
Las herramientas actuales de alineación de genomas completos tienen dificultades con la eficiencia de la paralelización debido a secuencias menos numerosas y más largas, lo que lleva a una subutilización de las CPU y a un aumento de los tiempos de ejecución.

Objetivo del estudio:

Desarrollar un método de alineación de genomas completos más rápido y eficiente para datos de secuenciación de lectura larga.
Abordar la utilización subóptima de la CPU y los tiempos de ejecución más largos de las herramientas de alineación existentes.

Principales métodos:

Se desarrolló mm2-plus, una versión mejorada del alineador minimap2.
Se implementó un algoritmo de encadenamiento paralelo de grano fino.
Se introdujo un método rápido para distinguir las cadenas de alineación primarias y secundarias.

Principales resultados:

Se logró una aceleración significativa en la alineación de genomas completos para genomas humanos, de plantas y de primates.
Se observaron aceleraciones que van desde 1.6× hasta 7.2×.
Se mantuvo una precisión de alineación comparable a los métodos existentes.

Conclusiones:

mm2-plus ofrece una mejora sustancial en la velocidad y la eficiencia para la alineación de genomas completos de datos de secuenciación de lectura larga.
Las optimizaciones abordan eficazmente los desafíos que plantean las secuencias genómicas grandes y contiguas.
Este avance es crucial para acelerar las canalizaciones de análisis genómico.