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Clinical Proteomic Tumor Analysis Consortium Data
- Alternate Title(s)
- CPTAC
- Description
The Clinical Proteomic Tumor Analysis Consortium (CPTAC) analyzes cancer biospecimens by mass spectrometry, characterizing and quantifying their constituent proteins, or proteome. Proteomic analysis for each CPTAC study is carried out independently by Proteomic Characterization Centers (PCCs) using a variety of protein fractionation techniques, instrumentation, and workflows. Mass spectrometry and...
- Subject
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CancerGenomicsProteomics
- Access Rights
- Free to All
- Local Expert
- David FenyoKelly V. Ruggles
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NYU Dataset
ORF2p Eludes Detection in Mass Spectrometry-Based Tumor Proteome Profiling
- Authors
- Daniel ArdeljanXuya WangMehrnoosh OghbaieMartin S. Taylor15 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
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GenomicsProteomics
- Access Rights
- Free to All
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NYU Dataset
Mass Spectrometry Data Suggests Mitovesicles are Altered in Down Syndrome
- Authors
- Pasquale D'AcunzoRocío Pérez-GonzálezYohan KimTal Hargash11 more author(s)...
- Description
This dataset showed that mitovesicles, extracellular vesicles (EVs) of mitochondrial origin, are altered in Down syndrome (DS). Mitochondrial dysfunction is a distinctive feature of aging and neurodegenerative disorders, such as DS and Alzheimer’s disease. For this study, a high-resolution density gradient separation of EVs isolated from murine and human DS and diploid control brains was used. Using...
- Subject
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GenomicsProteomics
- Access Rights
- Free to All
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NYU Dataset
Protemic Data Indicates Altered Steady State and De Novo Protein Expression in Fragile X Syndrome
- Authors
- Heather BowlingAditi BhattacharyaGuoan ZhangDanyal Alam13 more author(s)...
- Description
Fragile X syndrome (FXS) is caused by changes in FMR1 gene, which leads to transcriptional silencing and loss of its protein product fragile X mental retardation protein (FMRP). For this study, proteomic experiments were performed to investigate the de novo translational profile in FXS model mice is altered at steady state and in response to metabotropic glutamate receptor (mGluR) stimulation. Altered...
- Subject
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GenomicsProteomics
- 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
Sequencing Data Decodes the Architecture of the Varicella-Zoster Virus Transcriptome
- Authors
- Shirley E. BraspenningTomohiko SadaokaJudith BreuerGeorges M. G. M. Verjans2 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
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GenomicsInfectious DiseaseProteomics
- Access Rights
- Free to All
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NYU Dataset
Protein Modifications Discovered Using Differential Tandem Mass Spectrometry Proteomics
- Authors
- Paolo CifaniZhi LiDanmeng LuoMark Grivainis3 more author(s)...
- Description
This dataset was collected to present a spectral alignment method for the identification of protein modifications using high-resolution mass spectrometry proteomics. For this study, they used SAMPEI for spectral alignment-based modified peptide identification. SAMPEI is an open-source algorithm that is designed for the discovery of functional protein and peptide signaling modifications. Human OCI-AML2...
- Subject
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GenomicsProteomics
- Access Rights
- Free to All
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NYU Dataset
Structural Characterization of Monoclonal Antibodies Targeting Ser404 Region of Phosphorylated Tau Protein
- Authors
- Jessica E. ChukwuErin E. CongdonEinar M. SigurdssonXiang-Peng Kong
- Description
Tau is one of the major microtubule-associated proteins in neurons. Its main role is to stabilize microtubules, supporting cytoskeletal organization, and axonal transport. Tau may undergo pathological modifications and become hyperphosphorylated. This causes the protein to accumulate into toxic assemblies that collectively lead to neurodegeneration. In Alzheimer's disease, tau proteins change shape...
- Subject
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NeuroscienceProteomics
- Access Rights
- Free to All
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NYU Dataset
Limited Environmental Serine and Glycine Confer Brain Metastasis Sensitivity to PHGDH Inhibition
- Authors
- Bryan NgoEugenie KimVictoria Osorio-VasquezSophia Doll36 more author(s)...
- Description
Brain metastasis is the most common intracranial malignancy in adults, which is often fatal. Studies have shown that brain metastases depend on cooperative cellular interactions between tumor cells and specialized cells within the central nervous system (CNS). Metabolic constraints imposed by the serine and glycine limited brain environment restrict metastatic tumor growth. This study showed that 3-phosphoglycerate...
- Subject
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NeuroscienceProteomics
- Access Rights
- Application RequiredAuthor Approval Required
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NYU Dataset
Staphylococcus Aureus Cell Envelope Selectively Controls the Sorting of Selective Exoproteins
- Authors
- Xuhui ZhengGerben MarsmanKeenan A. LaceyJessica R. Chapman3 more author(s)...
- Description
Leukocidins are crucial components of Staphylococcus aureus (S. aureus) and they are secreted toxins that directly target and lyse immune cells. One of the leukocidins, Leukocidin AB (LukAB), is associated with the bacterial cell envelope. This study examined how S. aureus regulates LukAB secretion as well as the role of bacteria-associated LukAB in host-pathogen interaction. They used tissue culture...
- Subject
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Cell PhysiologyProteomics
- Access Rights
- Free to All