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Results Found: 27
  • Osteoarthritis Initiative

    Alternate Title(s)
    OAI
    Description

    The Osteoarthritis Initiative (OAI) was a longitudinal cohort study which investigated the natural history of knee osteoarthritis across the spectrum of the disease through the collection of imaging, biochemical, genetic, and risk markers of knee OA. Measures included knee symptoms and function (evaluated using the West Ontario and McMaster Universities Arthritis Index (WOMAC) and the Knee injury and...

    Subject
    Chronic Disease
    Health Status
    Risk Factors
    Access Rights
    Free to All
    Application Required
    Local Expert
    Cem Deniz
    Jonathan Samuels
  • NYU Dataset

    Human Oral Microbiota Composition Data from UAE Healthy Future Study (UAEHFS) Pilot Participants

    Authors
    Yvonne Vallès
    Claire K. Inman
    Brandilyn A. Peters
    Raghib Ali
    24 more author(s)...
    Description

    This dataset includes 330 Emirati adults participating in the UAE Healthy Future Study-Pilot (UAEHFS-pilot) who provided mouthwash samples. There were 225 non-smokers and 105 smokers who used cigarettes, dokha, shisha, or a combination of tobacco products. 101 of the 105 smokers were male. Tobacco use and frequency were assessed with a structured questionnaire and urine cotinine lab results. Gene...

    Subject
    Health Status
    Risk Factors
    Access Rights
    Free to All
    Application Required
  • NYU Dataset

    Transposon Insertion Profiling by Sequencing (TIPseq) Utilized for LINE-1 Mapping in Single Cells

    Authors
    Wilson McKerrow
    Zuojian Tang
    Jared P. Steranka
    Lindsay M. Payer
    5 more author(s)...
    Description

    This dataset was compiled to determine a genome-wide long interspersed element-1 (LINE-1) insertion site mapping method for bulk DNA. This study has shown that transposon insertion profiling by sequencing (TIPseq) is a method that can be used for LINE-1 mapping in single cells. Live GM12878 lymphoblastoid cells were used for this study. The dataset contains sequencing data as well as supplementary...

    Subject
    Genomics
    Access Rights
    Free to All
  • NYU Dataset

    Evolutionarily Central Synaptic Role of Ku, X4L4, and XLF in NHEJ Synapsis

    Authors
    Bailin Zhao
    Go Watanabe
    Michael J. Morten
    Dylan A. Reid
    2 more author(s)...
    Description

    NHEJ is the dominant double-strand break (DSB) repair pathway. During synapsis, the two DNA ends at a DSB are brought together into physical proximity for DNA repair. Using single-molecule FRET (smFRET), the study showed that both Ku and XRCC4:DNA ligase IV (X4L4) are necessary to achieve a flexible synapsis of blunt DNA ends. The addition of XLF causes a transition to a close synaptic state and the...

    Subject
    Genomics
    Access Rights
    Free to All
  • NYU Dataset

    Whole Exome Sequencing Confirmed Progression of Smoldering Multiple Myeloma to Multiple Myeloma

    Authors
    Eileen M. Boyle
    Shayu Deshpande
    Ruslana Tytarenko
    Cody Ashby
    19 more author(s)...
    Description

    Smoldering multiple myeloma (SMM) is an asymptomatic plasma cell disorder. It is associated with a high-risk of progression to multiple myeloma (MM). For this study, they performed targeted sequencing on 82 patients. The results showed fewer NRAS and FAM46C mutations with SMM, which is consistent with their role as drivers of the transition to MM. They also analyzed the change in clonal structure over...

    Subject
    Cancer
    Genomics
    Access Rights
    Free to All
    Author Approval Required
  • 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
    Access Rights
    Free to All
  • NYU Dataset

    Direct RNA Sequencing Reveals the Role of N6-Methyladenosine in Regulating Splicing of a Viral Pathogen

    Authors
    Alexander M. Price
    Katharina E. Hayer
    Alexa B. R. McIntyre
    Nandan S. Gokhale
    7 more author(s)...
    Description

    Adenovirus is a nuclear replicating DNA virus that relies on the host cell machinery for productive infection. Processing and metabolism of cellular RNAs are regulated by METTL3, which catalyzes the addition of N6-methyladenosine (m6A) to messenger RNAs. Although m6A-modified adenoviral RNAs have been detected previously, the location and function of m6A within the infectious cycle is unknown. For...

    Subject
    Genomics
    Infectious Disease
    Proteomics
    Access Rights
    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

    Immunotherapy Efficacy in Melanoma is Modulated by Gut Microbiota

    Authors
    Brandilyn A. Peters
    Melissa Wilson
    Una Moran
    Anna Pavlick
    5 more author(s)...
    Description

    This study characterized gut microbiome in pre-treatment stool using 16S rRNA gene and shotgun metagenome sequencing in melanoma patients undergoing immunotherapy. Transcriptional expression of metagenomic pathways was confirmed with metatranscriptome sequencing. Metatranscriptomics is important for determining expression of metagenomic functions in the microbial community. They also examined associations...

    Subject
    Genomics
    Access Rights
    Free to All
  • NYU Dataset

    Early-Life Antibiotic Exposures Increase Susceptibility to Inflammatory Bowel Disease

    Authors
    Ceren Ozkul
    Victoria E. Ruiz
    Thomas Battaglia
    Joseph Xu
    4 more author(s)...
    Description

    The data from this study shows that early-life antibiotic use may affect the progression of subsequent disease conditions by changing host microbiota and immunologic development. For this study, they used a murine model of dextran sodium sulfate (DSS)-induced colitis and evaluated the effect on disease outcomes of early-life pulsed antibiotic treatment (PAT). The dataset includes 16S sequencing data....

    Subject
    Genomics
    Access Rights
    Free to All