The Core will provide statistical services that include consultation for grant preparation, data management, data analysis, electronic data capture, and the management and coordination of multi-center clinical trials to Clinical and Laboratory Investigators.
The goal of the core is to serve the computing needs of the epidemiology community of the Channing Laboratory and beyond. In that vein, the Core provides fast access to our server for data management and analysis and storage for large data sets especially for whole genome genetic studies.
GENOMICS INSTRUMENTS:
High-throughput DNA and RNA sequencing
As part of the service that our NeuroTech Studio provides, our customers can access the brand new Illumina NextSeq 550 sequencing machine. You can choose either to upload the data to Illumina’s cloud storage or save it to the designated space on Partners’ ERISone high-performance computing cluster. For later, we will take care of your data with seamless service, from data management, data backup, data QC, downstream NGS analysis, till the final uploading to GEO/dbGap before your publication. It’s an affordable, secured, and customized service that both you and your data deserve.
Single-cell Genomics
We also provide a single-cell genomics platform: 10x Genomics CHROMIUM CONTROLLER. You can use it for Single Cell CNV, Single Cell Gene Expression, Single Cell Immune Profiling, and Single Cell ATAC.
Analysis Service
At this stage, the program will primarily provide NGS data analysis service, including but not limited to:
- Data management (storage/backup, meta-table management, GEO/dbGap submission),
- RNA-seq analysis (from raw sequencing data to QC, to normalized gene expression table, group comparison, pathway analysis, and interactive reporting and visualization of the results),
- Small RNA-seq analysis (e.g. miRNAs, circRNAs, piRNAs, eRNAs, etc.),
- Single-cell omics analysis (10x Genomics pipeline, clustering, trajectory analysis, spatial transcriptomics, etc.),
- ChIP-seq analysis (e.g. QC, peak calling, differential binding, UCSC Genome Browser visualization, etc.)
- Variant calling from genotyping/WGS/WES data, and
- Other next-generation sequencing (NGS) data analysis (ATAC-seq, CAGE, ChIA-PET, Hi-C, etc.)
The core provides breeding and husbandry of gnotobiotic mice and assists investigators with analyses regarding effects of metabolic, immunologic and other physiologic effects following host colonization commensal and/or pathogenic microbes. The core also provides consults on microbiome and bioinformatics.
The core provides information management and analysis needs of the MGH/Partners/Harvard research community as well as non-profit organizations and industry.
Center for Integrated Healthcare Data Research
The Integrated Analytics core has been established by the division of Pharmacoepidemiology and Pharmacoeconomics to allocate computer programmer effort and closely related costs to federal and non-federal projects. The division of Pharmacoepidemiology and Pharmacoeconomics specializes in analyzing massive data sets related to prescription data use.
