AMLisoDB is a comprehensive database dedicated to cataloging and annotating transcript isoform diversity in acute myeloid leukemia (AML). To achieve high-confidence transcriptome annotation in AML, we developed a multi-tool integrative assembly workflow combining long-read Oxford Nanopore Technologies (ONT) sequencing and short-read NGS RNA-Seq data. The pipeline leverages the complete human reference genome GRCh38.p14 (including all reference chromosomes, scaffolds, assembly patches, and alternate haplotypes) to ensure comprehensive annotation of isoforms across both canonical and non-canonical genomic regions. The gtf data of the transcripts is available from the author (email: xiaoguangshi@sjtu.edu.cn) upon reasonable request.