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  • NYU Dataset

    ORF2p Eludes Detection in Mass Spectrometry-Based Tumor Proteome Profiling

    Authors
    Daniel Ardeljan
    Xuya Wang
    Mehrnoosh Oghbaie
    Martin S. Taylor
    15 more author(s)...
    Description

    This study showed that long interspersed element-1 (LINE-1) ORF2p expression is almost undetectable in human cancers. LINE-1 is the major driver of mobile DNA activity in humans. When expressed, LINE-1 loci produce bicistronic transcripts encoding two proteins essential for retrotransposition, ORF1p and ORF2p. ORF2p expression is not well characterized in human tissues and cell lines. For the study,...

    Subject
    Cancer
    Proteomics
    Access Rights
    Free to All
  • NYU Dataset

    Sequencing Data Decodes the Architecture of the Varicella-Zoster Virus Transcriptome

    Authors
    Shirley E. Braspenning
    Tomohiko Sadaoka
    Judith Breuer
    Georges M. G. M. Verjans
    2 more author(s)...
    Description

    The data from this study displays the complexity of the varicella-zoster virus (VZV) transcriptome architecture. VZV causes varicella and reactivates later in life to cause herpes zoster. The VZV genome is known to produce multitudes of overlapping transcripts and distinct open reading frames (ORFs) have been studied as well. However, the architecture of the VZV transcriptome remains unknown. This...

    Subject
    Genomics
    Infectious Disease
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    Free to All
  • NYU Dataset

    Direct RNA Sequencing Characterized Complex Viral Transcriptomes

    Authors
    Daniel P. Depledge
    Kalanghad Puthankalam Srinivas
    Tomohiko Sadaoka
    Devin Bready
    4 more author(s)...
    Description

    This dataset was collected to show that direct RNA sequencing using nanopore arrays is an alternative to conventional RNA sequencing approaches, which are complicated by high gene density, overlapping reading frames, and complex splicing patterns. In direct RNA sequencing, individual polyadenylated RNAs are sequenced directly. For this study, direct RNA sequencing was used to profile the herpes simplex...

    Subject
    Genomics
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    Free to All
  • NYU Dataset

    RNA Immunoprecipitation Sequencing Reveals ORF1p Association with Prostate Cancer

    Authors
    Erica M. Briggs
    Wilson McKerrow
    Paolo Mita
    Jef D. Boeke
    2 more author(s)...
    Description

    Long interspersed element-1 (LINE-1) is an autonomous retroelement that utilizes copy and paste mechanism to propagate themselves throughout the genome through a process called retrotransposition. The LINE-1 bicistronic mRNA codes for two proteins, ORF1p and ORF2. While LINE-1 transcription is usually repressed in most healthy somatic cells, ORF1p expression has been observed in tumors, including prostate...

    Subject
    Cancer
    Genomics
    Access Rights
    Free to All
  • NYU Dataset

    Condensation of ORF1p is Critical for LINE-1 Retrotransposition

    Authors
    Srinjoy Sil
    Sarah Keegan
    Farida Ettefa
    Lance T. Denes
    2 more author(s)...
    Description

    Long interspersed element-1 (LINE-1) is an autonomously active retrotransposon in the human genome. The LINE-1 mRNA encodes two proteins, ORF1p and ORF2p, which are essential for retrotransposition. This study showed that electrostatic interactions and trimer conformational dynamics together tune the properties of ORF1p assemblies to allow for efficient LINE-1 ribonucleoprotein complex formation in...

    Subject
    Cell Physiology
    Access Rights
    Free to All