Comprehensive genomics using the Illumina Beadstation 500

使用 Illumina Beadstation 500 进行全面基因组学分析

• 批准号: 7389311
• 负责人: LOUISE C. SHOWE
• 金额: $ 40.47万
• 依托单位: WISTAR INSTITUTE
• 依托单位国家: 美国
• 财政年份: 2008
• 资助国家: 美国
• 起止时间: 2008-04-17 至 2009-04-16
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7389311
• 关键词: Applications Grants; Biological Markers; Biological Models; Cancer Etiology; Cessation of life; Characteristics; Charge; Complementary DNA; Complex; Cutaneous; DNA Methylation; Data; Faculty; Gene Dosage; Gene Expression; Genetic; Genomics; Health; Housing; Institution; Lead; Malignant Neoplasms; Malignant neoplasm of lung; Maps; Mutation; Natural regeneration; Organ; Pilot Projects; Polymerase Chain Reaction; Price; Process; Production; Research Personnel; SNP genotyping; Sampling; Services; Stem cells; T-Cell Lymphoma; Technology; Thinking; Time; Transcript; lung cancer screening; melanoma; mouse model; programs; repaired; research study; response; trait

DESCRIPTION (provided by applicant): The purchase of the Illumina Beadstation 500 will allow our microarray facility to move from using an in house cDNA platform for gene expression studies to a commercial platform that provides a better service at a price comparable to what we now charge. This comes at a time when it would be necessary to remake the PCR products for our in house arrays to continue their production, a costly and time consuming process. The purchase of the Illumina Beadstation 500 will also allow us to provide a better and more complete platform for gene expression studies than the one we have been using and one which will provide data that can easily be compared and confirmed by other investigators using this platform. Since the transcript coverage is the same as the Affymetrix gene expression platform, comparisons across these platforms will also be possible. In addition to gene expression studies, we will now be able to offer new genomic services that we could not previously provide. The new services will include SNP genotyping, gene expression using fixed samples, gene copy number changes and DNA methylation studies, thus providing access to a more complete panel of genetic assessment platforms. We have presented projects, and in some cases preliminary results from pilot studies, that describe experiments requiring access to each of these technologies as the Wistar faculty and users at other academic institutions move into new studies with important health related objectives. These projects include programs to develop biomarkers for early detection of lung cancer, which remains a primary cause of cancer related deaths, a project to identify characteristics of melanoma stem cells, which may lead to new targets for therapy for this recalcitrant cancer, a project to map the complex traits for regeneration in a mouse model system that may lead to new ways of thinking about repair processes in organs, and new studies to identify markers for response to therapy in both lung cancer and Cutaneous T-cell lymphoma. Access to these technologies will be important for new grant applications and to expand our services to include the assessment of genetic changes that are not detectable at the levels of gene expression.

描述(申请人提供)：购买Illumina Beadstation 500将使我们的微阵列设施从使用内部基因表达研究平台转移到一个商业平台，以与我们现在收取的价格相当的价格提供更好的服务。这发生在有必要为我们的内部阵列重新制造PCR产品以继续生产的时候，这是一个昂贵且耗时的过程。购买Illumina Beadstation 500还将使我们能够为基因表达研究提供一个比我们一直使用的平台更好、更完整的平台，并且提供的数据可以很容易地被使用该平台的其他研究人员比较和确认。由于转录覆盖范围与Affymetrix基因表达平台相同，因此也可以进行跨平台的比较。除了基因表达研究，我们现在还可以提供以前无法提供的新的基因组服务。新的服务将包括SNP基因分型、使用固定样本的基因表达、基因拷贝数变化和DNA甲基化研究，从而提供更完整的遗传评估平台小组。我们已经提交了项目，在某些情况下，来自试点研究的初步结果描述了随着Wistar教职员工和其他学术机构的用户进入具有重要健康相关目标的新研究，需要使用这些技术的实验。这些项目包括开发用于早期发现肺癌的生物标记物的项目，肺癌仍然是癌症相关死亡的主要原因的项目，确定黑色素瘤干细胞特征的项目，这可能会为这种顽固性癌症的治疗带来新的靶点，一个在小鼠模型系统中绘制再生复杂特征图的项目，这可能会导致对器官修复过程的新的思考，以及确定肺癌和皮肤T细胞淋巴瘤治疗反应的标记物的新研究。获得这些技术对于新的赠款申请和扩大我们的服务，包括评估在基因表达水平上无法检测到的基因变化将是重要的。

项目成果

Modulation of gene expression in heart and liver of hibernating black bears (Ursus americanus).

• DOI: 10.1186/1471-2164-12-171
• 发表时间: 2011-03-31
• 期刊: BMC genomics
• 影响因子: 4.4
• 作者: Fedorov VB;Goropashnaya AV;Tøien Ø;Stewart NC;Chang C;Wang H;Yan J;Showe LC;Showe MK;Barnes BM
• 通讯作者: Barnes BM

Glucocorticoids increase CD4CD25 cell percentage and Foxp3 expression in patients with multiple sclerosis.

• DOI: 10.1111/j.1600-0404.2008.01090.x
• 发表时间: 2009-04
• 期刊: Acta neurologica Scandinavica
• 影响因子: 3.5
• 作者: Braitch M;Harikrishnan S;Robins RA;Nichols C;Fahey AJ;Showe L;Constantinescu CS
• 通讯作者: Constantinescu CS

Preservation of bone mass and structure in hibernating black bears (Ursus americanus) through elevated expression of anabolic genes.

通过合成代谢基因的表达升高，在冬眠的黑熊（URSUS Americanus）中保存骨骼质量和结构。

• DOI: 10.1007/s10142-012-0266-3
• 发表时间: 2012-06
• 期刊: FUNCTIONAL & INTEGRATIVE GENOMICS
• 影响因子: 2.9
• 作者: Fedorov, Vadim B.;Goropashnaya, Anna V.;Toien, Oivind;Stewart, Nathan C.;Chang, Celia;Wang, Haifang;Yan, Jun;Showe, Louise C.;Showe, Michael K.;Donahue, Seth W.;Barnes, Brian M.
• 通讯作者: Barnes, Brian M.

Expression of activity-dependent neuroprotective protein in the immune system: possible functions and relevance to multiple sclerosis.

• DOI: 10.1159/000258695
• 发表时间: 2010
• 期刊: Neuroimmunomodulation
• 影响因子: 2.4
• 作者: Braitch M;Kawabe K;Nyirenda M;Gilles LJ;Robins RA;Gran B;Murphy S;Showe L;Constantinescu CS
• 通讯作者: Constantinescu CS

The peripheral immune response and lung cancer prognosis.

• DOI: 10.4161/onci.21096
• 发表时间: 2012-11-01
• 期刊: Oncoimmunology
• 影响因子: 7.2
• 作者: Showe MK;Kossenkov AV;Showe LC
• 通讯作者: Showe LC