Proteomics seminar series for the South East
---Registration is free---
-- The London Proteomics Discussion Group --
Proteomics seminar series for the South East
Proteomics seminar series for the South East
We are a free, local proteomics seminar series in the South East,
with a focus towards networking, discussion and supporting early career researchers.
The LPDG...
was founded to bring together the large community of proteomics scientists all working in and around London. We aim to provide a space for discussion, with a focus on methods and early career researchers (two fundamental building blocks of good research!), on all topics related to proteomics. The meetings comprise of research talks framed by a proteomics methods challenge, lunch, refreshments and pizza - they are free to attend thanks to sponsorship.
Meeting Dates:
These seminars would not be possible without our amazing sponsors.
If you are interested in sponsoring an LPDG seminar,
please get in touch at sponsor@londonproteomics.co.uk
05th March 2021 14:00 GMT
Single-Cell Signalling Analysis of Tumour Microenvironment Organoids by Mass Cytometry
Despite the widespread adoption of organoids as biomimetic tissue models, methods to comprehensively analyze cell-type-specific post-translational modification (PTM) signaling networks in organoids are absent. Here, we report multivariate single-cell analysis of such networks in organoids and organoid cocultures. Simultaneous analysis by mass cytometry of 28 PTMs in >1 million single cells derived from small intestinal organoids reveals cell-type- and cell-state-specific signaling networks in stem, Paneth, enteroendocrine, tuft and goblet cells, as well as enterocytes. Integrating single-cell PTM analysis with thiol-reactive organoid barcoding in situ (TOBis) enables high-throughput comparison of signaling networks between organoid cultures. Cell-type-specific PTM analysis of colorectal cancer organoid cocultures reveals that shApc, KrasG12D and Trp53R172H cell-autonomously mimic signaling states normally induced by stromal fibroblasts and macrophages. These results demonstrate how standard mass cytometry workflows can be modified to perform high-throughput multivariate cell-type-specific signaling analysis of healthy and cancerous organoids.
Ultrasensitive single-cell proteomics workflow identifies >1000 protein groups per mammalian cell
We report on the combination of nanodroplet sample preparation, ultra-low-flow nanoLC, high-field asymmetric ion mobility spectrometry (FAIMS), and the latest-generation Orbitrap Eclipse Tribrid mass spectrometer for greatly improved single-cell proteome profiling. FAIMS effectively filtered out singly charged ions for more effective MS analysis of multiply charged peptides, resulting in an average of 1056 protein groups identified from single HeLa cells without MS1-level feature matching. This is 2.3 times more identifications than without FAIMS and a far greater level of proteome coverage for single mammalian cells than has been previously reported for a label-free study. Differential analysis of single microdissected motor neurons and interneurons from human spinal tissue indicated a similar level of proteome coverage, and the two subpopulations of cells were readily differentiated based on single-cell label-free quantification.
SCoPE2 for single-cell proteomics
Macrophages are innate immune cells with diverse functional and molecular phenotypes. This diversity is largely unexplored at the level of single-cell proteomes because of limitations of quantitative single-cell protein analysis. To overcome this limitation, we developed SCoPE2, which substantially increases quantitative accuracy and throughput while lowering cost and hands-on time by introducing automated and miniaturized sample preparation. These advances enable us to analyze the emergence of cellular heterogeneity as homogeneous monocytes differentiate into macrophage-like cells in the absence of polarizing cytokines. SCoPE2 quantified over 3,042 proteins in 1,490 single monocytes and macrophages in ten days of instrument time, and the quantified proteins allow us to discern single cells by cell type. Furthermore, the data uncover a continuous gradient of proteome states for the macrophages, suggesting that macrophage heterogeneity may emerge in the absence of polarizing cytokines. This gradient correlates to the inflammatory axis of classically and alternatively activated macrophages. Parallel measurements of transcripts by 10x Genomics suggest that our measurements sample 20-fold more protein copies than RNA copies per gene, and thus SCoPE2 supports quantification with improved count statistics. The joint distributions of proteins and transcripts allowed exploring regulatory interactions, such as between the tumor suppressor p53, its transcript, and the transcripts of genes regulated by p53. Our methodology lays the foundation for quantitative single-cell analysis of proteins by mass-spectrometry and demonstrates the potential for inferring transcriptional and post-transcriptional regulation from variability across single cells.
Would you like to present at an LPDG meeting? Email: speaker@londonproteomics.co.uk
Research presentations from:
Chris received his Ph.D. from Prof. Gillian Murphy's lab at the University of Cambridge. He was then awarded a Sir Henry Wellcome Postdoctoral Fellowship between The Institute of Cancer Research and Massachusetts Institute of Technology to study how oncogenes signal across multiple cell types in cancer. Chris now leads the Cell-Communication Lab at UCL Cancer Institute under a CRUK Career Development Fellowship (www.tape-lab.com). Chris’ lab develops custom single-cell signalling technologies to study how oncogenes communicate in the tumour microenvironment.
The Kelly Group develops technological solutions for ultrasensitive biochemical analyses, including single cell and nanoscale proteomics.
Ed moved to the University of Liverpool in November 2019 to set up his lab as part of the Centre for Proteome Research, Department of Biochemistry. The labs goal is the use and development of proteomic methods to study RNA virus replication and virus-host interactions, and in particular the use of single-cell proteomics to aid in this research. The lab primarily works on (murine) norovirus and SARS-CoV-2. Previously, Ed was a Postdoc in Nikolai Slavov’s lab, part of the Department of Bioengineering and the Barnett Institute for Chemical and Biological Analysis at Northeastern University. His postdoctoral research with Nikolai involved the study of ribosome heterogeneity and the immune response, as well as the development and application of single cell proteomic methods (SCoPE-MS/SCoPE2).
Professor Takats has pursued pioneering research in mass spectrometry and he is one of the founders of the field of ‘Ambient Mass Spectrometry’. He is the primary inventor of six mass spectrometric ionization techniques and author of 78 peer reviewed publications. He was the recipient of the prestigious Mattauch-Herzog Award of the German Mass Spectrometry Society and the Hungarian Star Award for Outstanding Innovators. He is the founder of Prosolia Inc, Medimass Ltd and Massprom Ltd, all companies pursuing analytical and medical device development.
March 2020 Meeting
Here is a list of answers to frequently asked questions for speakers, delegates and sponsors
The meetings are free to attend! We raise money through the generous support of sponsors for refreshments and venue hire. Sponsors are offered the opporunity to suggest a plenary research presentaiton or present a short (10min) sales talk.
Yes! Thanks again to the support of our sponsors, we are able to provide a sandwhich buffet lunch, refreshments, and pizza and drinks to end. We try our best to get a range of refreshments to support diverse dietry requirments, but please let us know in advance if you have any specific needs.
We are always looking for new speakers - from PhD candidates to senior scientists within proteomics. We recruit speakers through personal invitations/networking, suggestions from deligates and from people contacting us directly. If you would like to present at a meeting, we would be delighted to hear from you, please get in touch at speaker@londonproteomics.co.uk
Registration is not essential, but it is very helpful for us to arrange catering and venues to ensure we don't over/under spend. In some cases, where space is limiting, registration may be essential and we will advertise this. If in doubt - register!
We do not have any funding to support delegates. However, if you are speaking, it may be possible to get a travel grant from the British Society for Proteome Research (BSPR). In some instances, we may be able to subsidise travel costs for speakers, but this is dependant on sponsorship for that meeting.
The organising committee is made up of early career (including PhD candidates) and more experienced scientist from academia and industry. We are very keen to have a bredth of backgrounds and experience on the committee, so if you would like to be involved, please get in touch by speaking to a committee member at a meeting, or emailing us - we would like to hear from you!
Our meetings are focused on proteomics and the delegates include proteomics-users from academia and industry. Therefore, at these meetings, there is a "captured audience" of possible clients. Sponsoring our meeting will allow you to present your product or service to a concentrated group of possible users. These meetings are only possible with sponsorship, and you will be contributing to the disemiation of science, and potentially meeting tallented future employees through networking.
We have a range of options for meeting sponsorship. To sponsor a meeting, please get in touch at sponsor@londonproteomics.co.uk, we will be delighted to hear from you.
Yes! Just like our physical meetings, our webinars are completely free to attend.
Please register for our meeting in the normal way (click here). A link will be emailed to you prior to the meeting starting with instructions on how to join. Alternatively, a join link for the webinar will also be posted here immediately prior to it starting. For webinars run as a Microsoft Live Event, find instructions on how to join here, or using Zoom here.
The discussion will be mediated by the chairperson who will take questions from all attendies. The best way to contribute during the talk and to post questions is through our slack account.
The meetings are recored and will be posted to our archive page.
We do not currently recieve any funding for our webinars. We are able to put them on with the generous support of other institution who allow us to use their webinar-enabled online communications accounts (e.g. Zoom).
If you still have unanswered questions after reading this page, wish to present a talk, suggest a venue or sponsor a meeting, please contact us.
The organising committee is made up of early and "not-so-early" career scientists
from academia and industry.
If you are interested in joining the committee, please get in touch.
After my PhD in blood plasma cancer proteomics I moved to the Cancer Proteomics Group at UCL. I founded the LPDG as a focus group for the SE. I am currently at the Babraham Institute investigating protein degradation pathways using proteomics.
I am a post doc at ICL, developing mass spectrometry and data analysis methodology for the study of protein PTMs, in particular methylation. My research is multidisciplinary, using chemistry, bioinformatics and biology. For more info, click here.
I am a post-doc at the ICR in Paul Huang’s group. My research interest is in extracellular matrix remodelling during cancer progression. From an analytical point of view, I am interested in protein quantification by DIA mass spectrometry.
I manage an MS lab at QMUL. I graduated from Drexel University (USA) in Biomedical Science, completing my PhD work at Harvard University. After a long stint in the private sector, I re-joined academia here in the UK researching lipidomics and proteomics.
Danai studied biology and biomedical sciences in Greece. She has worked in numerous labs in England, Singapore, the Netherlands and Greece. Now she is focusing on her PhD at UCL in Primary Biliary Cholangitis analyzing human samples using Mass spectrometry.
I am a PhD student at UCL on the CellX project in the Thalassinos Lab studying competition in cellular populations using mass spectrometry-based proteomics.
Daniel is a post-doc in the lab of Prof. Ed Tate at Imperial College London. His research interests lie in the use of chemical proteomics for better understanding of drug targets, protein function, and post-translational modification dynamics.
Tom works for SCIEX in the London region helping customers with MS and 'OMICS applications. He gained an interest in MS from working with Prof Roy Goodacre, Manchester Institute of Biotech. applying -omics and chemometric approaches for rapid food authenticity determination.
Please email with any questions.
Particularly welcome are venue suggestions,
speaker suggestions or if you are thinking of sponsoring a meeting.
This seminar series is run by volunteers from academia and industry. We will try to reply to your email as quickly as possible, but please allow at least 5 days.
