RNA-Seq Quality Control
We are happy to post here the results, methods, data, scripts, and phalanx of papers for the Food and Drug Administration’s (FDA) Sequencing Quality Control (SEQC) Study on RNA-Sequencing (RNA-Seq) and the Association of Biomolecular Resource Facilities (ABRF) Phase I Study on Next-Generation Sequencing (NGS), which focused on RNA-seq. These 11 complementary studies have focused on all aspects of RNA-sequencing, including: RNA quality, library preparation, sequencing, alignment, quantification, normalization, integration, and concordance. The overarching goal was to establish robust measures and methods for of inter-site and inter-platform RNA-seq concordance, which is critical for clinical applications, self-evaluation/improvement, and technology and informatics development.
Mason Lab Celebrates 1st PhD Graduate Sheng Li
Sheng Li successfully defended her thesis titled “Epigenetic Dysregulation in Relapsed Acute Myeloid Leukemia.”
PI: Christopher Mason
Lab Manager Paul Zumbo
Postdocs: Cem Mayden
Graduate Students: Sheng Li, Yogesh Saletore, Marjan Bozinoski, Lenore Pipes, Dhruva Chandramohan, Darryl Reeves, Priyanka Vijay
Staff: Jorge Gandara, Sagar Chhangawala, Noah Alexander
The overall goal of our research is to identify and characterize the pivotal functional elements in the human genome.
In the long-term, we aim to model the functional elements of the human genome across tissues and cells into complete networks;
to then repair, re-engineer, or fortify these genetic networks. Toward this end, we leverage computational genomics and parallelized
bioinformatic algorithms to analyze data across integrative modalities of biology (genetic, epigenetic, transcriptional, and
metabolomic). These high-throughput next-generation sequencing (NGS) datasets are used to discern the most important molecular
signatures during development and disease.
Pathomap is a research project by Weill Cornell Medical College to study the microbiotic population and
genetic dynamics in urban areas in order to detect and respond to escalated microbial dangers