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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
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Chronic DiseaseHealth StatusRisk Factors
- Access Rights
- Free to AllApplication Required
- Local Expert
- Cem DenizJonathan Samuels
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NYU Dataset
Human Oral Microbiota Composition Data from UAE Healthy Future Study (UAEHFS) Pilot Participants
- Authors
- Yvonne VallèsClaire K. InmanBrandilyn A. PetersRaghib Ali24 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
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Health StatusRisk Factors
- Access Rights
- Free to AllApplication Required
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NYU Dataset
Transposon Insertion Profiling by Sequencing (TIPseq) Utilized for LINE-1 Mapping in Single Cells
- Authors
- Wilson McKerrowZuojian TangJared P. SterankaLindsay M. Payer5 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
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Genomics
- Access Rights
- Free to All
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NYU Dataset
Evolutionarily Central Synaptic Role of Ku, X4L4, and XLF in NHEJ Synapsis
- Authors
- Bailin ZhaoGo WatanabeMichael J. MortenDylan A. Reid2 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
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Genomics
- Access Rights
- Free to All
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NYU Dataset
Whole Exome Sequencing Confirmed Progression of Smoldering Multiple Myeloma to Multiple Myeloma
- Authors
- Eileen M. BoyleShayu DeshpandeRuslana TytarenkoCody Ashby19 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
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CancerGenomics
- Access Rights
- Free to AllAuthor Approval Required
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NYU Dataset
Direct RNA Sequencing Characterized Complex Viral Transcriptomes
- Authors
- Daniel P. DepledgeKalanghad Puthankalam SrinivasTomohiko SadaokaDevin Bready4 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
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Genomics
- Access Rights
- Free to All
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NYU Dataset
Direct RNA Sequencing Reveals the Role of N6-Methyladenosine in Regulating Splicing of a Viral Pathogen
- Authors
- Alexander M. PriceKatharina E. HayerAlexa B. R. McIntyreNandan S. Gokhale7 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
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GenomicsInfectious DiseaseProteomics
- Access Rights
- Free to All
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NYU Dataset
RNA Immunoprecipitation Sequencing Reveals ORF1p Association with Prostate Cancer
- Authors
- Erica M. BriggsWilson McKerrowPaolo MitaJef D. Boeke2 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
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CancerGenomics
- Access Rights
- Free to All
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NYU Dataset
Immunotherapy Efficacy in Melanoma is Modulated by Gut Microbiota
- Authors
- Brandilyn A. PetersMelissa WilsonUna MoranAnna Pavlick5 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
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Genomics
- Access Rights
- Free to All
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NYU Dataset
Early-Life Antibiotic Exposures Increase Susceptibility to Inflammatory Bowel Disease
- Authors
- Ceren OzkulVictoria E. RuizThomas BattagliaJoseph Xu4 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
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Genomics
- Access Rights
- Free to All