[PDF][PDF] Integrated genomic characterization of pancreatic ductal adenocarcinoma
…, P Loher, ER Londin, I Rigoutsos, AG Telonis… - Cancer cell, 2017 - cell.com
We performed integrated genomic, transcriptomic, and proteomic profiling of 150 pancreatic
ductal adenocarcinoma (PDAC) specimens, including samples with characteristic low …
ductal adenocarcinoma (PDAC) specimens, including samples with characteristic low …
Analysis of 13 cell types reveals evidence for the expression of numerous novel primate-and tissue-specific microRNAs
E Londin, P Loher, AG Telonis… - Proceedings of the …, 2015 - National Acad Sciences
Two decades after the discovery of the first animal microRNA (miRNA), the number of miRNAs
in animal genomes remains a vexing question. Here, we report findings from analyzing …
in animal genomes remains a vexing question. Here, we report findings from analyzing …
Knowledge about the presence or absence of miRNA isoforms (isomiRs) can successfully discriminate amongst 32 TCGA cancer types
AG Telonis, R Magee, P Loher… - Nucleic acids …, 2017 - academic.oup.com
Isoforms of human miRNAs (isomiRs) are constitutively expressed with tissue- and disease-subtype-dependencies.
We studied 10 271 tumor datasets from The Cancer Genome Atlas (…
We studied 10 271 tumor datasets from The Cancer Genome Atlas (…
Beyond the one-locus-one-miRNA paradigm: microRNA isoforms enable deeper insights into breast cancer heterogeneity
AG Telonis, P Loher, Y Jing, E Londin… - Nucleic acids …, 2015 - academic.oup.com
Here we describe our study of miRNA isoforms (isomiRs) in breast cancer (BRCA) and normal
breast data sets from the Cancer Genome Atlas (TCGA) repository. We report that the full …
breast data sets from the Cancer Genome Atlas (TCGA) repository. We report that the full …
[HTML][HTML] Dissecting tRNA-derived fragment complexities using personalized transcriptomes reveals novel fragment classes and unexpected dependencies
AG Telonis, P Loher, S Honda, Y Jing, J Palazzo… - Oncotarget, 2015 - ncbi.nlm.nih.gov
We analyzed transcriptomic data from 452 healthy men and women representing five
different human populations and two races, and, 311 breast cancer samples from The Cancer …
different human populations and two races, and, 311 breast cancer samples from The Cancer …
[HTML][HTML] MINTmap: fast and exhaustive profiling of nuclear and mitochondrial tRNA fragments from short RNA-seq data
P Loher, AG Telonis, I Rigoutsos - Scientific reports, 2017 - nature.com
Transfer RNA fragments (tRFs) are an established class of constitutive regulatory molecules
that arise from precursor and mature tRNAs. RNA deep sequencing (RNA-seq) has greatly …
that arise from precursor and mature tRNAs. RNA deep sequencing (RNA-seq) has greatly …
YAMAT-seq: an efficient method for high-throughput sequencing of mature transfer RNAs
…, S Honda, P Loher, AG Telonis… - Nucleic acids …, 2017 - academic.oup.com
Besides translation, transfer RNAs (tRNAs) play many non-canonical roles in various
biological pathways and exhibit highly variable expression profiles. To unravel the emerging …
biological pathways and exhibit highly variable expression profiles. To unravel the emerging …
Mitochondrial tRNA-lookalikes in nuclear chromosomes: could they be functional?
AG Telonis, Y Kirino, I Rigoutsos - RNA biology, 2015 - Taylor & Francis
The presence in human nuclear chromosomes of multiple sequences that are highly similar
to human mitochondrial tRNAs (tRNA-lookalikes) raises intriguing questions about the …
to human mitochondrial tRNAs (tRNA-lookalikes) raises intriguing questions about the …
Race disparities in the contribution of miRNA isoforms and tRNA-derived fragments to triple-negative breast cancer
AG Telonis, I Rigoutsos - Cancer research, 2018 - AACR
Triple-negative breast cancer (TNBC) is a breast cancer subtype characterized by marked
differences between White and Black/African-American women. We performed a systems-…
differences between White and Black/African-American women. We performed a systems-…
MINTbase v2. 0: a comprehensive database for tRNA-derived fragments that includes nuclear and mitochondrial fragments from all The Cancer Genome Atlas projects
V Pliatsika, P Loher, R Magee, AG Telonis… - Nucleic acids …, 2018 - academic.oup.com
MINTbase is a repository that comprises nuclear and mitochondrial tRNA-derived fragments
(‘tRFs’) found in multiple human tissues. The original version of MINTbase comprised tRFs …
(‘tRFs’) found in multiple human tissues. The original version of MINTbase comprised tRFs …