Penn Medicine BioBank (PMBB)
Perelman School of Medicine at the University of Pennsylvania (PSOM)
The Penn Medicine BioBank (PMBB) is a research program created to study the causes and treatments of many diseases. Any Penn Medicine patient (age 18 and up) can sign up. The PMBB is a collection of biological samples, such as blood or tissue, that are donated by patient volunteers. These samples are then connected to clinical information, such as diseases or lab measures. These data are then used by researchers to discover new ways to detect, treat, and maybe even prevent or cure disease. Some of these studies may be about how genes affect health and disease. Other studies look at how genes affect response to medicines.
During your visit to Penn Medicine, you may be invited to participate in the Penn Medicine BioBank. If you join, you allow for access to your clinical information. You may also donate a blood sample that is collected during your clinic visit. Your donation will enable groundbreaking discoveries in medicine that can improve patients’ lives. Participation is completely voluntary and may help future generations.
We are soliciting protocols, from anyone in the epigenetics community that may be useful to the community at large. They will be posted here to be seen by a large audience and to facilitate both research and collaboration. Please contact firstname.lastname@example.org if you would like to share!
From Shelley Berger’s lab:
- Isolating Old Yeast by Surface Labeling – Quadruple Sorting
- Creating a ChIP Seq Library
- ChIP Protocol for IMR 90 cells
- qPCR for human cell RNA
From Arjun Raj’s lab:
Small Sample ChIP-seq Method:
Obtaining genome-wide information from small tissues or from few cells has been a technical challenge largely due to the inefficiency of several enzymatic reactions needed to prepare samples for high-throughput sequencing (ChIP-seq or RNA-seq). Recently, however, two advances have enabled robust sequencing of samples with little starting material. First, protocols for sequence library preparation have been optimized, allowing library preparation from as little as 500pg of dsDNA. Second, strategies pioneered for quantitation of RNA from single cells, such as linear amplification using the bacteriophage T7 RNA polymerase, have been adapted for ChIP. This method provides up to 100-fold amplification of material with one round of in vitro transcription. For example, a single haploid mouse cell contains ~2pg of dsDNA and approximately the same amount of RNA. Thus, a single round of linear amplification will yield ~200pg of dsDNA, theoretically allowing ChIP-seq for a sample pooling as few as 10 cells.