[PDF][PDF] Integrated genomic characterization of pancreatic ductal adenocarcinoma

…, PW Laird, S Ling, Y Lu, GB Mills, R Akbani, P Loher… - 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 …

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 …

Sex hormone-dependent tRNA halves enhance cell proliferation in breast and prostate cancers

S Honda, P Loher, M Shigematsu… - Proceedings of the …, 2015 - National Acad Sciences
Sex hormones and their receptors play critical roles in the development and progression of
the breast and prostate cancers. Here we report that a novel type of transfer RNA (tRNA)-…

The microRNAs within the DLK1-DIO3 genomic region: involvement in disease pathogenesis

…, E Londin, G Vartholomatos, P Loher… - Cellular and molecular …, 2013 - Springer
The mammalian genome is transcribed in a developmentally regulated manner, generating
RNA strands ranging from long to short non-coding RNA (ncRNAs). NcRNAs generated by …

Interactive exploration of RNA22 microRNA target predictions

P Loher, I Rigoutsos - Bioinformatics, 2012 - academic.oup.com
MicroRNA (miRNA) target prediction is an important problem. Given an miRNA sequence the
task is to determine the identity of the messenger RNAs targeted by it, the locations within …

[HTML][HTML] The complex transcriptional landscape of the anucleate human platelet

…, Y Jing, E Londin, P Loher, HW Chen, P Fortina… - BMC genomics, 2013 - Springer
… GO terms and p-values were computed and are shown separately for the total RNA (panels
A and B) and the rRNA-depleted preparations (panels C and D). Note that the GO category …

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 (…

[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 …

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 …

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 …