Author

Isabela Pimentel de Almeida

Universidade de São PauloORCID 0000-0001-9995-782XUnclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2 Evolutionary Biology· 1

Signature Assays, Organisms & Methods

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Organism:Drosophila· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Approach:experimental assay· 1 Research Focus:gene regulatory network inference· 1 Research Focus:genome assembly· 1

Frequent Co-Authors

Henry A B BrunoiD· 2 shared Maria D. VibranovskiiD· 2 shared Antonio Bernardo CarvalhoiD· 1 shared Eduardo Guimarães DupimiD· 1 shared Juliet D. FrenchiD· 1 shared Mainá BitariD· 1 shared Mara Maria Lisboa Santana PinheiroiD· 1 shared Stacey L. EdwardsiD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

9 top collaborators · 16 mutual co-author links

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2 shared papersEvolutionary Biology

Henry A B BrunoORCID

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3 papers

Recent·Most cited

BioinformaticsiSciencePeer-reviewedMay 29, 2026

HyDRA: a pipeline for integrating long- and short-read RNAseq data for custom transcriptome assembly

Isabela Pimentel de Almeida, Xue Mei Lu, Stacey L. Edwards…·Mainá Bitar

HyDRA integrates long- and short-read RNAseq data to improve transcriptome assembly, identifying over 50,000 new long noncoding RNAs in ovarian and fallopian tube samples.

DOI 10.1016/j.isci.2026.116131

humanbulk RNA-seq

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Evolutionary BiologybioRxivPreprintJan 22, 2026

Deciphering chromosome fusion in D. miranda's neo-sex chromosome through single-copy and repetitive oligo probes

Henry Bonilla, Isabela Oliveira de Almeida, Maria D. Vibranovski

This study designs and validates oligo probe libraries for Drosophila miranda's neo-sex chromosomes, enabling comprehensive chromosome painting and revealing evolutionary mechanisms of the Y chromosome.

DOI 10.64898/2026.01.20.700498

Drosophilaproteomics

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BioinformaticsBriefings in BioinformaticsPeer-reviewedAug 31, 2025

OligoY pipeline for full Y chromosome painting

Isabela Pimentel de Almeida, Henry A B Bruno, Eduardo Guimarães Dupim…·Maria D. Vibranovski

OligoY pipeline designs FISH Oligopaint probes for the Y chromosome, improving staining efficiency and reducing off-target signals in Drosophila melanogaster.

1 citation

Drosophilastatistical model

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