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We began analyzing https://www.oncotarget.com/article/4695/text/, but it redirected us to https://www.oncotarget.com/article/4695/text/. The analysis below is for the second page.

Title[redir]:
Dissecting tRNA-derived fragment complexities using personalized transcriptomes reveals novel fragment classes and unexpected dependencies | Oncotarget
Description:
// Aristeidis G. Telonis 1 , Phillipe Loher 1 , Shozo Honda 1 , Yi Jing 1 , Juan Palazzo 2 , Yohei Kirino 1 and Isidore Rigoutsos 1 1 Computational Medicine Center, Sidney Kimmel Medical College at Thomas Jefferson University, Philadelphia, PA, USA 2 Department of Pathology Anatomy and Cell Biology, Sidney Kimmel Medical College at Thomas Jefferson University, Philadelphia, PA, USA Correspondence to: Isidore Rigoutsos, email: // Keywords : tRNA fragment, human genome, nuclear tRNA, mitochondrial tRNA, Argonaute Received : June 10, 2015 Accepted : June 20, 2015 Published : July 06, 2015 Abstract 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 Genome Atlas. Our studies revealed numerous constitutive, distinct fragments with overlapping sequences and quantized lengths that persist across dozens of individuals and arise from the genomic loci of all nuclear and mitochondrial human transfer RNAs (tRNAs). Surprisingly, we discovered that the tRNA fragments’ length, starting and ending points, and relative abundance depend on gender, population, race and also on amino acid identity, anticodon, genomic locus, tissue, disease, and disease subtype. Moreover, the length distribution of mitochondrially-encoded tRNAs differs from that of nuclearly-encoded tRNAs, and the specifics of these distributions depend on tissue. Notably, tRNA fragments from the same anticodon do not have correlated abundances. We also report on a novel category of tRNA fragments that significantly contribute to the differences we observe across tissues, genders, populations, and races: these fragments, referred to as i-tRFs, are abundant in human tissues, wholly internal to the respective mature tRNA, and can straddle the anticodon. HITS-CLIP data analysis revealed that tRNA fragments are loaded on Argonaute in a cell-dependent manner, suggesting cell-dependent functional roles through the RNA interference pathway. We validated experimentally two i-tRF molecules: the first was found in 21 of 22 tested breast tumor and adjacent normal samples and was differentially abundant between health and disease whereas the second was found in all eight tested breast cancer cell lines.

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Keywords {🔍}

fragments, trna, trfs, datasets, figure, trnas, breast, mitochondrial, abundance, itrfs, anticodon, cell, internal, cancer, fragment, length, lcl, rna, normal, mature, brca, supplementary, nuclear, lengths, differences, dataset, genomic, tumor, reads, analysis, tissue, expression, human, profiles, genome, mers, sequence, shown, distinct, anticodons, specific, data, population, lines, small, yri, sequences, ccaending, mapping, samples,

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stress-induced trna-derived rnas parametric mann-witney u-test post-transcriptionally added cca-tail ago hits-clip-seq dataset mann-witney u-test mann-whitney u-test tissue-state-specific mrna “signatures” dicer-dependent small rnas 78 triple-negative-breast-cancer datasets ago clip-seq data fragment-specific pcr-based validation ebv-immortalized b-cells mining clip-seq data ago hits-clip datasets free publication high-throughput biomolecule analysis orange-colored labels mark gender-/population-/race-dependent difference publication alerts subscribe short rna-seq profiles starvation-induced cleavage race-dependent abundance profiles maps rna-seq data 5´-trf ggggaattagctcaag-t-ggtagagcgcttgct triple-negative breast cancer estrogen receptor status progesterone receptor status transfer rna-derived fragments short-rna sequencing profiles �short” rna-seq datasets tissue-specific mrna “signatures” scientific reports human mt4 t-cells human chromosome assembly terms “trna-derived fragments” gggggtgtag-c-tcagtggtaga trfs exhibit gender-dependencies semi-mature trna molecule trna-derived rna fragments inhibit protein translation reflecting disease-subtype specificity trna-derived fragments target open-access journal dedicated inaugural editorial ago clip-seq special computational provisions exhibit functional properties present multi-faceted evidence gender-specific trna profiles post-transcriptional regulation

Questions {❓}

Mitochondrial tRNA-lookalikes in nuclear chromosomes: Could they be functional?
Triple positive breast cancer: A distinct subtype?
What is our definition of tRNA space?

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Article:
      license:https://creativecommons.org/licenses/by/4.0/
      publisher:
         type:Organization
         name:Oncotarget
         logo:
            type:ImageObject
            url:https://www.oncotarget.com/images/oncotarget-logo-square.png
            width:1200
            height:1200
      dateModified:2016-08-27T11:11:21Z
      mainEntityOfPage:
         type:WebPage
         id:https://www.oncotarget.com/article/4695/text/
      headline:Dissecting tRNA-derived fragment complexities using personalized transcriptomes reveals novel fragment clas
      articleSection:Research Papers
      sameAs:https://doi.org/10.18632/oncotarget.4695
      image:https://www.oncotarget.com/index.php?journal=oncotarget&page=article&op=viewFile&path%5B%5D=4695&path%5B%5D=10723&path%5B%5D=63910
      datePublished:2015-07-06T00:00:00Z
      author:
            type:Person
            name:Telonis, Aristeidis G.
            type:Person
            name:Loher, Phillipe
            type:Person
            name:Honda, Shozo
            type:Person
            name:Jing, Yi
            type:Person
            name:Palazzo, Juan
            type:Person
            name:Kirino, Yohei
            type:Person
            name:Rigoutsos, Isidore
Organization:
      name:Oncotarget
      logo:
         type:ImageObject
         url:https://www.oncotarget.com/images/oncotarget-logo-square.png
         width:1200
         height:1200
ImageObject:
      url:https://www.oncotarget.com/images/oncotarget-logo-square.png
      width:1200
      height:1200
WebPage:
      id:https://www.oncotarget.com/article/4695/text/
Person:
      name:Telonis, Aristeidis G.
      name:Loher, Phillipe
      name:Honda, Shozo
      name:Jing, Yi
      name:Palazzo, Juan
      name:Kirino, Yohei
      name:Rigoutsos, Isidore

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