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Long noncoding RNAs represent a large class of transcripts with two common features: they exceed an arbitrary length threshold of 200 nt and are...

Recent development of spatial transcriptomic technologies has made it possible to systematically characterize cellular heterogeneity while preserving spatial information, which greatly enables the investigation of structural organization of a tissue and its impact on modulating cellular behavior. On the other ...

As the cost of single-cell RNA-seq experiments has decreased, an increasing number of datasets are now available. Combining newly generated and publicly accessible datasets is challenging due to non-biological signals, commonly known as batch effects...

PIWI-interacting RNAs (piRNAs) are a recently-discovered class of small non-coding RNAs (ncRNAs) with a length of 21-35 nucleotides. They play a role...

The ability to culture cerebral organoids or “minibrains” using stem cells derived from people has given scientists experimentally manipulable models of human neurological development and disease, but not without confounding challenges...

Single-cell RNA-sequencing (scRNA-seq) offers the opportunity to dissect heterogeneous cellular compositions and interrogate the cell-type-specific gene expression patterns across diverse conditions. However, batch effects such as laboratory conditions...

Single-cell RNA-sequencing (scRNA-seq) is becoming indispensable in the study of cell-specific transcriptomes. However, in scRNA-seq techniques, only a small fraction of the genes are captured due to “dropout” events. These dropout events require...

Single-cell RNA sequencing is a powerful technology to discover new cell types and study biological processes in complex biological samples. A current...

Alternative splicing plays a major role in regulating the functional repertoire of the proteome. However, isoform-specific effects to protein-protein interactions (PPIs) are usually overlooked, making it impossible to judge the functional role of individual exons on a systems biology level. ...

A number of alignment methods have been developed to enable the integration and comparison of scRNA-Seq data from studies using different...