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Biology subjects

Mir, K. U. I.

Publications and source records attributed to Mir, K. U. I..

2 recordsLinked to original sources

Targeting IGF2BP1 Creates a Mitotic Vulnerability in Colorectal Carcinoma

Background Mitotic dysregulation is a common feature of colorectal cancer (CRC), yet the contribution of post-transcriptional mechanisms remain incompletely understood. We investigated how the oncofetal RNA-binding protein IGF2BP1 supports mitotic integrity and exposes therapeutic vulnerabilities in CRC. Methods We integrated patient cohort analyses with genetic and pharmacological perturbation of IGF2BP1, transcriptomics, proteomics, RNA-binding assays and functional studies. Xenografts assessed tumor formation, while BTYNB-paclitaxel responses were examined in CRC cell lines and patient-derived organoids. Results IGF2BP1 expression was elevated in CRC, increased with tumor stage, and associated with poor survival and proliferative gene signatures. Genetic depletion or pharmacological inhibition of IGF2BP1 impaired cell viability, induced mitotic abnormalities, and promoted apoptosis, whereas its re-expression enhanced tumor formation in vivo. Integrated molecular analyses identified the chromosomal passenger complex (CPC) as a previously unrecognized downstream target of IGF2BP1. IGF2BP1 bound transcripts encoding CPC components and its depletion consistently reduced their expression across multiple cancer cell models. BTYNB disrupted IGF2BP1 association with INCENP, CDCA8, and BIRC5 transcripts and accelerated INCENP mRNA decay. Functionally, INCENP depletion recapitulated the mitotic defects and impaired viability observed upon IGF2BP1 inhibition. Exploiting this mitotic vulnerability, BTYNB synergized with paclitaxel in CRC cell lines and across four independent IGF2BP1-positive patient-derived organoid models. Conclusions Our findings uncover an IGF2BP1-dependent post-transcriptional regulatory mechanism sustaining CPC expression and mitotic integrity in CRC. Targeting this mechanism exposes a therapeutically exploitable mitotic vulnerability and provides a rationale for combining IGF2BP1 inhibition with microtubule-targeting agents.

cancer biology↗

RNA-seq derived sequence variations are excellent features for cell line identification

1Cell lines are indispensable models for analyzing molecular mechanisms underlying human diseases. However, incorrect annotation and cross-contamination can introduce severe bias in respective studies. Accordingly, various publishers request authentication of cell lines before publication. Short tandem repeat profiling is commonly used to verify cell line identity and purity but does not guarantee that published results are based on the samples tested by this method. In this study, we demonstrate that RNA-seq-derived sequence variation information is eligible for unambiguous cell line-specific clustering. Based on this finding, we propose methods for reliable cell line identification from RNA-seq data using supervised machine learning methods. In addition, we demonstrate the ability to detect cross-contamination of human cell lines. The presented methods are insensitive to different data pre-processing steps and quality measures. The proposed TopFracCCLE algorithm for cell line identification and detection of cross-contamination is available as R-script at https://github.com/HuettelmaierLab/topFracCCLE.

genomics↗