The connect@CHG Genomics Data Forum is a short & informal slice of science on Tuesday mornings, and aims to provide a forum for discussion around genomics data and to promote networking and collaboration. We host talks that include data in a broad sense that includes discussion of technologies, novel datasets, analysis methods and recent research with contributions from groups inside and outside the centre and externally.
We aim to make the Genomics Data Forum inclusive, entertaining and informative with a variety of topics and we especially promote discussion and networking after the talks... refreshments provided. Please join us for any/all of the sessions and we look forward to seeing you there!
hilary term 2025
we have an exciting programme of genomic Data Forum talks lined up for 2025!
Upcoming session:
Tuesday 22nd April 10:00-10:30
Bridge Penman (Dept. of Biology)
"Modelling host-pathogen co-evolution"
Talks take place in CHG Seminar Rooms A&B (in person only!) followed by discussion over tea, coffee and biscuits.
genomic Data Forum talks are aimed at a general audience and an opportunity to promote scientific discussion and interactions at chg - All very welcome to attend!
If you would like to present at a future session, please contact Helen Lockstone or Gavin Band.
Our thanks to all the presenters over last term for fantastic talks.
introducing the connect@cHG GeNomics Data Forum
+ discussion over tea/coffee & biscuits afterwards!
The connect@CHG Genomics Data Forum is a short & informal slice of science on Tuesday mornings, and aims to promote networking and collaboration within the centre. As the name suggests, the emphasis is on 'dealing with data', but in a broad sense that includes new (and 'old') technologies, analysis methods and recent research with contributions from groups inside and outside the centre.
We aim to make the Genomics Data Forum inclusive, entertaining and informative with a variety of topics and we especially promote discussion and networking after the talks... refreshments provided. Please join us for any/all of the sessions and we look forward to seeing you there!
Please see the listings below for the current Genomics Data Forum schedule and details of previous talks.
If you are interested in presenting or chairing a session or have an idea to discuss, please contact the Genomics Data Forum organisers Gavin Band (gavin.band@well.ox.ac.uk) and Helen Lockstone (helen.lockstone@well.ox.ac.uk).
Michaelmas term 2024 / Hilary term 2025
We are interleaving Genomics Data Forum talks with the CAMS-Oxford Institute Seminar (COI seminar) which will usually run on alternate Tuesdays. COI seminar listings can be found here.
All Genomics Data Forum sessions happen at 10:00-10:30 in Rooms A & B - in person!
| Date | Time | Speaker and Title | Chair |
| 5th November 2024 | 10:00-10:30 | Yanxia Wu (TPG) "Making long-read transcriptomics great again" | Gavin Band |
| 19th November 2024 | 10:00-10:30 | Yuhan Zhou (IMCM) "A machine learning workflow for proteomic data analysis" | Gavin Band |
| 3rd December 2024 | 10:00-10:30 | No Genomics Data Forum | |
| Christmas break | |||
| 14th January 2025 | 10:00-10:30 | Lydia Jennings "Does malaria parasite genetic variation affect vaccine efficacy?" | Gavin Band |
| 28th January 2025 | 10:00-10:30 | Charlie Clark "Exploring the structure of chemokine networks and the ability of tick evasins to inhibit them" | Helen Lockstone |
| 11th February 2025 | 10:00-10:30 | Anand Maurya / Shahzad Ahmad "Omics analyses of Parkinson's disease at the IMCM" | Avigail Taylor |
| 25th February 2025 | 10:00-10:30 | Jessica Kepple "Towards single cell glomerular diagnostics: a methodology for informing glomerular signatures from human renal biopsies" | Helen Lockstone |
| 11th March 2025 | 10:00-10:30 | Annie Forster "Discovery of genetic interactions between humans and malaria parasites, across populations" | Helen Lockstone |
| 25th March 2025 | 10:00-10:30 | Rob Beagrie "Transcriptional phenotyping of mouse models using single-cell and bulk RNA-seq" | Gavin Band |
| 8th April 2025 | 10:00-10:30 | No Genomics Data Forum | |
| 22nd April 2025 | 10:00-10:30 | Bridget Penman (Dept. of Biology) "Modelling human-pathogen co-evolution" | Gavin Band |
| 6th May 2025 | 10:00-10:30 | Yan Chen "The impact of host genetic variation on HCV sequence diversity" | Gavin Band |
| 20th May 2025 | 10:00-10:30 | Christoph Treiber "A journey down memory circuits - unraveling the molecular processes of learning and memory" | Helen Lockstone |
| 3rd June 2025 | 10:00-10:30 | No Genomics Data Forum (Group leaders' away day) | |
| 17th June 2025 | 10:00-10:30 | Dan Crouch (GSK) "The false evidence rate" | Gavin Band |
| 1st July 2025 | 10:00-10:30 | Seren Ford | Helen Lockstone |
| 15th July 2025 | 10:00-10:30 | Bana Alamad "Meta-analysis of the genetic basis of COVID-19 Vaccine response in multi-ethnic populations" | Helen Lockstone |
Hilary / Trinity terms 2024
All Data Forum sessions happen at 10:00-10:30 in Rooms A & B - in person!
| Date | Time | Speaker and Title | Chair |
| 20th Feb 2024 | 10:00-10:30 | Duncan Robertson Gene trees and pedigrees: inferring ancestry in the 100,000 Genomes Project | Helen Lockstone |
| 5th March 2024 | 10:00-10:30 | Amanda Chong A common NFKB1 variant detected through antibody analysis in UK Biobank predicts risk of infection and allergy | Gavin Band |
| 19th March 2024 | 10:00-10:30 | Annie Forster A complex structural variant at a sickle-associated locus in the malaria parasite genome | Helen Lockstone |
| 2nd April 2024 | (Easter break) | ||
| 16th April 2024 | 10:00-10:30 | Cillian Gartlan "Using spatial transcriptomics to tease out differences in the lung tissue response to SARS-CoV-2 infection in vaccinated, unvaccinated and re-challenged rhesus macaques" | Gavin Band |
| 30th April 2024 | 10:00-10:30 | Callum O'Neill "Defining immunosuppression in the UK Biobank and GWAS of post-vaccination antibody response, using COVID-19 as a model" | Helen Lockstone |
| 14th May 2024 | 10:00-10:30 | Data Forum - TBC | |
| 28th May 2024 | 10:00-10:30 | Femi Oluwole (Taylor group) "Variant annotation in Parkinsonism in Genomics England through patient-candidate gene prioritisation" | Helen Lockstone |
| 11th June 2024 | 10:00-10:30 | Alejandra Vergara (NDPH) "Computational efficiency of local ancestry inference" | Helen Lockstone |
| 25th June 2024 | 10:00-10:30 | Steph Fowler (IMCM) and Oliver Crook (Dept. of Stats) "Introduction to dynamic subcellular proteomics and transcriptomics analysis (LOPIT/LoRNA)" Followed by a hands-on analysis workshop 11:00-13:00 sign-up here. | Gavin Band |
| 9th July 2024 | 10:00-10:30 | Ricardo Fernandes "Mapping the reactivity of T-cell receptors" | Gavin Band |
| 16th July 2024 | 10:00-10:30 | Zhipeng Zhang "Proof-of-principle low-coverage sequencing in The Gambia" | Helen Lockstone |
Previous talks
These talks ran in Michaelmas term 2023
| Date | Time | Speaker and Talk Title | Chair |
10th Oct 2023 | 10:00-10:30 | Gavin Band The long-read bakeoff - revisited. Comparing the latest PacBio and Nanopore platforms. | Helen Lockstone |
24th Oct 2023 | 10:00-10:30 | Emma Reeves (Southampton) Unpicking the identity of polymorphic components of the antigen processing and presentation pathway | Gavin Band |
14th Nov 2023 | 10:00-10:30 | Steve Taylor Potential applications of large language models in computational biology and data analysis: potentials and pitfalls | Helen Lockstone |
28th Nov 2023 | 10:00-10:30 | Samvida Venkatesh Genetic determinants of infertility and reproductive hormones | Helen Lockstone |
12th Dec 2023 | 10:00-10:30 | Isar Nassiri Demultiplexing single-cell RNA-seq using between-individual variation | Avigail Taylor |
Previous talks
These talks were run in Hilary/Trinity term 2023.
.
| Date | Speaker(s) | Talk Title | Link | Chair |
| Tue 7th Mar 2023 @10:00 | Jia-Yuan Zhang | Lakeview: publication-ready genomic data visualisations in python | Gavin Band | |
Tue 14th Mar 2023 @9:30 | Tal Arnon | COI Seminar - see here for details. Starts at 9:30. | Ricardo A. Fernandes | |
Tue 21st Mar 2023 @10:00 | Ruth Nanjala | Characterizing HLA diversity in global populations | Gavin Band | |
Tue 28th Mar 2023 @9:30 | Paresh Vyas | COI Seminar - see here for details. Starts at 9:30. | Ricardo A. Fernandes | |
| Tue 4th Apr 2023 @10:00 | - | (Oxfordshire school holidays 3rd-14th April) | ||
| Tue 18th Apr 2023 @9:30 | Audrey Gérard | COI Seminar - see here for details. Starts at 9:30. | Ricardo A. Fernandes | |
Tue 2nd May 2023 @10:00 | Lino Fonseca Ferreira | Finding genetic interactions in the UK Biobank | Gavin Band | |
| Tue 9th May 2023 @9:30 | Malcolm Sim | Peptide-specific Natural Killer Cell Receptors COI Seminar - see here for details. Starts at 9:30. | Ricardo A. Fernandes | |
| Tue 16th May 2023 @10:00 | Charlotte Rich-Griffin | Panpipes: Python pipelines for multi-omic single-cell data analysis | Helen Lockstone | |
| Tue 23rd May 2023 @9:30 | - | COI Seminar - see here for details. Starts at 9:30. | Ricardo A. Fernandes | |
| Tue 30th May 2023 @10:00 | Samvida Venkatesh | Leveraging primary care electronic health records for genetic research | https://tinyurl.com/3m3afwsn | Gavin Band |
| Tue 6th June 2023 @9:30 | - | COI Seminar - see here for details. Starts at 9:30. | Ricardo A. Fernandes | |
| Tue 13th June 2023 @10:00 | Frederik Lassen | Evidence of gene knockout effects across common phenotypes in the UK Biobank | Helen Lockstone | |
| Tue 20th June 2023 @9:30 | - | COI Seminar - see here for details. Starts at 9:30. | Ricardo A. Fernandes | |
| Tue 27th June 2023 @10:00 | Srinivasa Rao | Tumour evolution in prostate cancer: combining genomics with histology | Gavin Band | |
| Tue 4th July @9:30 | - | COI Seminar - see here for details. Starts at 9:30. | Ricardo A. Fernandes | |
| Tue 11th July @10:00 | Steve Taylor | Multi Dimensional Viewer (MDV): a web based application for analyzing, annotating and sharing multi-dimensional data from different modalities. | Helen Lockstone | |
| Tue 18th July @9:30 | - | COI Seminar - see here for details. Starts at 9:30. | Ricardo A. Fernandes |
Previous talks
These talks were run in Michaelmas 2022
Previous talks
These talks were held in Trinity 2022. The theme for this season was long reads.
Date | Talk | Link | Chair |
Tue 17 May 2022 | Introduction and generating buzz John Todd / Helen Lockstone / Gavin Band | ||
Tue 24 May 2022 | First look at Pacbio methylation data - Jia-Yuan Zhang | Gavin Band | |
Tue 31 May 2022 | General drop-in session - questions and discussion on anything related to long-read sequencing. | In-person only. WHG cafe | Hosts: Gavin Band, Helen Lockstone & Paolo Piazza |
Tue 7 June 2022 | Using MinIONs to sequence malaria parasites - Jason Hendry | Gavin Band | |
Tue 14 June 2022 | No meeting | ||
Tue 21 June 2022 | New approaches to RNA-seq - Paolo Piazza | Delia O'Rourke | |
Tue 28 June 2022 | Viral sequencing using PacBio - David Bonsall Followed by building tour led by Jane Pernes - please sign-up here. | Azim Ansari | |
Tue 5 July 2022 | Using PacBio to sequence the gut microbiome - Jethro Johnson | Avigail Taylor | |
Tue 12 July 2022 | Using long-reads and optical mapping to resolve clinically relevant structural variation - Alistair Pagnamenta |