Henry Ford remarked that coming together is a beginning, staying together is progress, and working together is success. Working together is also more fun. Thus, from the very beginning, we sought to help colleagues adopt and use single-cell proteomic methodologies that our laboratory developed, and to do so following best practices To develop and disseminate … Continue reading Guidelines for single-cell proteomic experiments
single cell omics
Adsorption losses during single-cell proteomics
Proteins are wonderfully diverse! Their physicochemical diversity is essential to animating life, to performing the myriad functions necessary to process energy, nutrients and information in living systems. The physicochemical diversity of proteins also poses challenges to proteomic analysis. Different amino acid sequences can adsorb to various surfaces, thus resulting in losses, reduced sensitivity and even … Continue reading Adsorption losses during single-cell proteomics
Framework for increasing proteomics throughput
Simultaneously achieving achieving deep proteome coverage, high data completeness, high throughput, and high sensitivity has been a long standing challenge in the field of proteomics. This challenge is particularly evident and relevant to single-cell proteomics, which has the potential to enable mechanistic investigations of key biological questions, such as signaling mechanisms based on protein binding, modifications, and … Continue reading Framework for increasing proteomics throughput
Direct causal mechanisms
Understanding biological systems: In search of direct causal mechanisms The advent of DNA-microarrays spurred a vigorous effort to reverse engineer biological networks. Recently, these efforts have been reinvigorated by the availability of RNA-seq data from perturbed and unperturbed single cells. In the talk below, I discuss the opportunities and limitations of using such data for … Continue reading Direct causal mechanisms
Evaluating preprints
I am hugely enthusiastic for communicating research by preprints. So naturally, I am happy to see when the president and strategic advisers of one of the most elite funding institutes embraces preprints: https://twitter.com/slavovLab/status/1095734247384641541 For centuries, publishing a scientific article was just about sharing the results. More recently, publishing research articles in a journal has served … Continue reading Evaluating preprints
Single-cell proteomics
Ever since my lab posted the SCoPE-MS preprint, I have been repeatedly asked about the future potential and the cost of quantifying proteins by high-throughput mass-spectrometry in single cells. I will summarize a few thoughts that hopefully will be helpful and will reduce email traffic. Why quantify proteins and PTMs in single cells? Single-cell RNA-seq … Continue reading Single-cell proteomics
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