Geo M. Pertea

Overlapping yet distinct spatiomolecular profiles across mood disorders and biological sex in the human prefrontal cortex

The paper uses spatial transcriptomics to analyze molecular differences in mood disorders and biological sex in the human prefrontal cortex, identifying sex- and disorder-specific gene expression patterns.

Mapping spatially organized molecular and genetic signatures of schizophrenia across multiple scales in human prefrontal cortex

This study maps molecular and genetic signatures of schizophrenia in human prefrontal cortex across spatial scales, revealing altered BDNF-TrkB signaling and inhibitory circuit dysfunction.

StringTie3 Improves Total RNA-seq Assembly by Resolving Nascent and Mature Transcripts

StringTie3 improves total RNA-seq assembly by resolving nascent and mature transcripts, reducing errors and enhancing precision and sensitivity in both short- and long-read data.

Transcriptomic analysis of the human habenula in schizophrenia

The paper performs transcriptomic analysis of the human habenula and identifies molecular changes associated with schizophrenia risk and illness state.

Genetic and environmental contributions to ancestry differences in gene expression in the human brain

The paper examines how genetic ancestry influences gene expression and DNA methylation in admixed African/Black Americans, showing environmental and genetic factors affect brain disease risk.

Improved Transcriptome Assembly Using a Hybrid of Long and Short Reads with StringTie

The paper improves transcriptome assembly by combining long and short reads using StringTie, achieving higher accuracy and transcript count than either method alone.

Transcriptome assembly from long-read RNA-seq alignments with StringTie2

StringTie2 assembles error-prone long reads, recovering on average 8.3 and 2.6 times as many correct transcripts as FLAIR and Traphlor, and outperforms Scallop on short reads.

Thousands of large-scale RNA sequencing experiments yield a comprehensive new human gene list and reveal extensive transcriptional noise

The paper compiles RNA sequencing data from 9,795 experiments to create a new human gene catalog, identifying novel genes and transcripts while highlighting extensive transcriptional noise.