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Jonathan Bartlett

@jonathan-bartlett.bsky.social
1K followers 164 following 52 posts

Biostatistician, London School of Hygiene & Tropical Medicine. Blogging at thestatsgeek.com

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Jonathan Bartlett @jonathan-bartlett.bsky.social · 05/10/2026
A reminder that this is happening tomorrow...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 09/09/2026
I am seeking to support an applicant for a PhD scholarship to pursue a PhD at LSHTM, starting October 2027, on developing machine learning methods for handling missing data in statistical analyses. For more details, and to express interest, please complete the form docs.google.com/forms/d/e/1F...
docs.google.com
LSHTM PhD - machine learning for missing data
I am seeking to support an applicant for a PhD scholarship from the UBEL DTP to pursue at PhD at LSHTM, starting October 2027. The topic is about developing machine learning methods for handling missi...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 09/09/2026
Tue 6th Oct - please join online or in London to hear Michael Sweeting from GSK on 'Beyond dichotomisation: Efficient estimation of response rates using continuous outcomes' www.lshtm.ac.uk/newsevents/e... @lshtm-dash.bsky.social
lshtm.ac.uk
Beyond dichotomisation: Efficient estimation of response rates using continuous
Dichotomisation of continuous outcomes into 'responder' and 'non-responder' categories remains widespread in clinical research, particularly where a threshold carries clinical meaning (e.g. blood
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 24/07/2026
Research Fellow post at LSHTM. Come and work with Njeru Njagi, Matteo Quartagno, Wende Clarence Safari, Aurélien Belot, Bernard Rachet and myself on extending multiple imputation methods, in particular for analyses of electronic health records in cancer. jobs.lshtm.ac.uk/vacancy.aspx...
jobs.lshtm.ac.uk
Job Opportunity at LSHTM: Research Fellow in Statistics
The London School of Hygiene & Tropical Medicine (LSHTM) is one of the world’s leading public health universities. Our mission is to improve health and health equity in the UK and worldwide; working i...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 17/07/2026
Now tagging @miatck.bsky.social, who judging by the followers I think is the right Mia!
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 17/07/2026
Next Thursday (23rd July), joins us online or at LSHTM for a @lshtm-dash.bsky.social seminar by Mia Tackney (MRC BSU) on her work 'Capturing the curve: Functional data analysis for validated digital outcome measures'. More details here: www.lshtm.ac.uk/newsevents/e...
lshtm.ac.uk
Capturing the curve: Functional data analysis for validated digital outcome
The use of digital health technologies to measure outcomes in clinical trials opens new opportunities as well as methodological challenges. Digital outcome measures can provide more convenient data
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 06/07/2026
New paper 'The role of post intercurrent event data in the estimation of hypothetical estimands in clinical trials', now available in Statistics in Biopharmaceutical Research doi.org/10.1080/1946... and open-access at researchonline.lshtm.ac.uk/id/eprint/46...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 03/06/2026
Thursday 11th June, join us at LSHTM or online to hear from Rebecca Whittle on 'How large is large enough? Sample size calculations for clinical prediction models'. Further details here: www.lshtm.ac.uk/newsevents/e... @lshtm-dash.bsky.social
lshtm.ac.uk
How large is large enough? Sample size calculations for clinical prediction
Clinical prediction models are increasingly used to support decision-making, yet guidance on how large a dataset is needed to develop a reliable model remains limited. In practice, sample size is
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 13/05/2026
Perspectives on statistics in medicine: Annual joint LSHTM/RSS lecture on 16th June, by Prof. Marion Campbell. Further details here: www.lshtm.ac.uk/newsevents/e...
lshtm.ac.uk
Perspectives on statistics in medicine: Annual joint LSHTM/RSS lecture | LSHTM
Future directions in the evaluation of innovative technologies in healthcare: Technology in healthcare is rapidly advancing. For example, a recent healthcare report suggests that 9 out of 10
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 13/05/2026
Thanks Tom. Recording should be on the same page within the next week.
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 07/05/2026
A few places left on our online 3 day course on multiple imputation for missing data...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 07/05/2026
Come and join us this Tuesday to hear 'The test negative design: What bias is it intended to address?' @lshtm-dash.bsky.social www.lshtm.ac.uk/newsevents/e...
lshtm.ac.uk
The test-negative design: What bias is it intended to address? | LSHTM
Test-negative studies recruit ‘cases’ who test positive for a particular disease; ‘controls’ are patients undergoing the same tests for the same medical reasons and who test negative. The design is
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 29/01/2026
Please join us in person or online @lshtm-dash.bsky.social on 26th February to hear about @georgiatomova.bsky.social's recent work on 'How can different modes of survey data collection introduce bias?' www.lshtm.ac.uk/newsevents/e...
lshtm.ac.uk
How can different modes of survey data collection introduce bias? | LSHTM
Survey data are self-reported data collected directly from respondents by a questionnaire or an interview, and are commonly used in health research. Such data are traditionally collected via a single
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 15/01/2026
'How to interpret hazard ratios', with @dominicmagirr.bsky.social and @timpmorris.bsky.social thestatsgeek.com/2026/01/15/h...
thestatsgeek.com
How to interpret hazard ratios
Survival analysis of time-to-event outcomes is very commonly performed using Cox’s famous proportional hazards model. The model estimates hazard ratios for the ‘effects’ of covari…
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 06/01/2026
@lshtm.bsky.social will be running a 3-day online short course on using multiple imputation to handle missing data on 23-25th June 2026. Teaching staff include James Carpenter, Ruth Keogh, Clémence Leyrat, and myself. Further details about the course at www.lshtm.ac.uk/study/course...
lshtm.ac.uk
Statistical Analysis with Missing Data Using Multiple Imputation | LSHTM
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The EuroCIM @eurocim.bsky.social · 11/11/2025
🥳 Registration for abstracts for EuroCIM 2026 (Oxford) is now OPEN and the deadline for submissions is 9 January 2026: eurocim.org/oxford-2026/... 👉 Theme? “Causal inference in health, economic and social science” 👉 When? April 14-17 👉 Where? Oxford 👉 Register? eurocim.org/oxford-2026/...
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Brennan Kahan @brennankahan.bsky.social · 22/10/2025
New PhD position available at @mrcctu.bsky.social to develop guidance on balancing statistical and clinical considerations when choosing an estimand in RCTs. www.findaphd.com/phds/project...
findaphd.com
Optimising the choice of estimand in randomised trials: developing guidance on balancing statistical and clinical considerations to ensure results matter to stakeholders at University College London o...
PhD Project - Optimising the choice of estimand in randomised trials: developing guidance on balancing statistical and clinical considerations to ensure results matter to stakeholders at University Co...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 03/09/2025
Thinking of performing a quantitative bias analysis for measurement error or misclassification? Then our recent software review, by Codie Wood, Kate Tilling, myself and Rachael Hughes, may be of interest: rdcu.be/eDRn2
rdcu.be
Quantitative bias analysis for mismeasured variables in health research: a review of software tools | BMC Medical Research Methodology
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Suzie Cro @suziecro.bsky.social · 01/09/2025
Are estimands being correctly used? A new review of protocols led by Timothy Clark shows many incorrectly defined estimand attributes. See the top areas for improvement & full results here: trialsjournal.biomedcentral.com/articles/10.... #Trials
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 26/08/2025
I gave the same talk earlier in the year at the @causalab.bsky.social and this is online youtu.be/2E3NusvsMaI?...
youtu.be
2025 CAUSALab Methods Series with Jonathan Bartlett
YouTube video by CAUSALab at Harvard T.H. Chan
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Myra McGuinness @myramcguinness.bsky.social · 11/08/2025
September @vicbiostat.bsky.social seminar: Camila Olarte Parra from @causalab.bsky.social Karolinska will speak on combining information from trial participants and non-participants in registry-based trials. All welcome online 25 September. More info: www.vicbiostat.org.au/event/combin...
vicbiostat.org.au
Combining information from trial participants and non-participants in registry-based trials
Even though the advantages of randomised tria
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 20/08/2025
We are recruiting a Research Fellow to develop machine learning based methods for handling missing data @lshtm.bsky.social. See jobs.lshtm.ac.uk/vacancy.aspx... for more details.
jobs.lshtm.ac.uk
Job Opportunity at LSHTM: Research Fellow
The London School of Hygiene & Tropical Medicine (LSHTM) is one of the world’s leading public health universities. Our mission is to improve health and health equity in the UK and worldwide; working i...
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Myra McGuinness @myramcguinness.bsky.social · 23/07/2025
We are looking forward to hearing @jonathan-bartlett.bsky.social speak on the G-formula for causal inference using synthetic multiple imputation at the July @vicbiostat.bsky.social seminar! All welcome online Thursday 24th, 4:00pm Aus EST (7:00am UK time). www.vicbiostat.org.au/event/g-form...
vicbiostat.org.au
G-formula for causal inference using synthetic multiple imputation
G-formula is a popular approach for estimatin
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Nan van Geloven @gelovennan.bsky.social · 19/05/2025
HIRING! 2 PhD openings within the “Safe Causal Inference” consortium with experts from biostatistics, computer science, math, and epidemiology. You'll develop new methods to evaluate prediction algorithms that take the causal effect of treatments into account. 👉 www.lumc.nl/en/about-lum....
lumc.nl
PhD Candidates Causal machine learning – Performance assessment of causal predictive algorithms | LUMC
Do you want to work on challenging problems within causal inference and contribute to algorithms that support treatment decisions for individual patients? As PhD candidate causal machine learning at t...
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Margarita Moreno-Betancur @margaritamb.bsky.social · 10/07/2025
1/ NEW R PACKAGE! For estimating the impact of potential interventions on multiple mediators in countering exposure effects (led by @cttc101.bsky.social) - Paper👉 tinyurl.com/ye26jsps - Package👉 tinyurl.com/yuh4kens Thread shows published examples of how the method can be used! #EpiSky #CausalSky
tinyurl.com
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Data & Statistical Science for Health, LSHTM @lshtm-dash.bsky.social · 10/06/2025
📣 Calling everyone working in #datascience #biostatistics #clinicaltrials We’re bringing together experts on target-trial emulation and other frameworks, where we’ll explore the role and potential of observational data for evaluating the effects of interventions Don’t miss out 🔽 bit.ly/TTE_25
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Data & Statistical Science for Health, LSHTM @lshtm-dash.bsky.social · 27/05/2025
🚨 Next month, we’ll be hosting a one-day event on target-trial emulation and other frameworks, exploring the role and potential of observational data for evaluating the effects of interventions Open to everyone working in #datascience #biostatistics #clinicaltrials Get your ticket 🔽 bit.ly/TTE_25
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 21/05/2025
I probably misunderstand, but when you install a package it will install other packages it depends on. And then when you load the package with library() it loads the dependencies likewise.
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 13/05/2025
Join us on 10th June (online or in London @lshtm-dash.bsky.social ) to hear from Matthew Sperrin talk about his work on 'Prediction under intervention: challenges and trade-offs'.More details at www.lshtm.ac.uk/newsevents/e...
lshtm.ac.uk
Prediction under intervention: challenges and trade-offs | LSHTM
Causality and prediction are often two separate activities. In particular, prediction can be done in a way that is agnostic to underlying knowledge, mechanism or causal structure. However, it is very
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Ruth Keogh @ruthkeogh.bsky.social · 24/04/2025
📆 SAVE THE DATE: 26 June 📆 for our 1-day event on “Target trial emulation and other frameworks: The role and potential of observational data for evaluating effects of interventions”, hosted by the Centre for Data & Statistical Science for Health (DASH) at LSHTM. @lshtm-dash.bsky.social
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 03/04/2025
Indeed. This paper is a good overview of the ICH E9 addendum on estimands on this topic: doi.org/10.1136/bmj-...
doi.org
The estimands framework: a primer on the ICH E9(R1) addendum
Estimands can be used in studies of healthcare interventions to clarify the interpretation of treatment effects. The addendum to the ICH E9 harmonised guideline on statistical principles for clinical ...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 03/04/2025
Yes it could. These hypothetical estimands do indeed deviate from what I have always interpreted ITT to mean. For me ITT means analyse according to randomised group and look at outcomes irrespective of events such as treatment switch.
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 03/04/2025
Should data observed after intercurrent events handled by the hypothetical strategy be used in estimation of treatment effects? Rhian Daniel and I investigate... thestatsgeek.com/2025/04/03/t...
thestatsgeek.com
The role of post intercurrent event data in the estimation of hypothetical estimands in clinical trials
Clinical trial estimands which make use of the so-called hypothetical strategy target the effect of one randomised treatment compared to another in a scenario where the corresponding intercurrent e…
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 02/04/2025
'G-formula with multiple imputation for causal inference with incomplete data'. Open access in Statistical Methods in Medical Research. doi.org/10.1177/0962...
doi.org
Sage Journals: Discover world-class research
Subscription and open access journals from Sage, the world's leading independent academic publisher.
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Ghazaleh Dashti @ghazalehd.bsky.social · 02/04/2025
📣 📣NEW PAPER providing guidance on best practice for using multiple imputation when estimating interventional mediation effects, considering missingness mechanism, multiple imputation model specification, & variance estimation #CausalSky #EpiSky Read more 👇🏽 journals.lww.com/epidem/abstr...
journals.lww.com
Handling multivariable missing data in causal mediation... : Epidemiology
miologic studies. However, guidance is lacking on best practice for using multiple imputation when estimating interventional mediation effects, specifically regarding the role of missingness mechanism...
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Alejandro Schuler @aschuler.bsky.social · 31/03/2025
New paper! We extend my prior work on prognostic adjustment to work with generalized linear models. This is a nice way to gain power in randomized trials (eg with binary outcomes) by leveraging historical data in a way that does not sacrifice type I error control. arxiv.org/abs/2503.22284
arxiv.org
Powering RCTs for marginal effects with GLMs using prognostic score adjustment
In randomized clinical trials (RCTs), the accurate estimation of marginal treatment effects is crucial for determining the efficacy of interventions. Enhancing the statistical power of these analyses ...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 28/03/2025
Sorry. I agree with you! My initial reaction/thinking was that in conditional imputation there are two variables in play, with one only defined in those for whom the first takes a certain value. But as you indicate, you can translate this into a problem with one variable. Thank you!
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 27/03/2025
Probably looking at the example in the vignette will (hopefully!) make it clear.
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 27/03/2025
Not the same I don't think. This is about a situation similar to censoring- you have partial info about the missing values. The smcfcs additions are though for factor variables, where instead of the exact category, you know someone belongs to one among a subset of the categories...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 27/03/2025
Imputation of factor variables when you have partial information about some of the missing values. See here for more details thestatsgeek.com/2025/03/27/m...
thestatsgeek.com
Multiple imputation for coarsened (grouped) factor covariates
Missing data are a common problem in statistical analyses. A closely related but slightly different problem is when for an individual in a dataset, although we do not know the exact value of a part…
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 19/03/2025
3rd April, in London and online, come and hear @rlgrant.bsky.social talk about his new book with Gian Luca Di Tanna on Bayesian meta-analysis. Further details at www.lshtm.ac.uk/newsevents/e...
lshtm.ac.uk
Demystifying Bayesian meta-analysis for researchers | LSHTM
Bayesian models offer a powerful framework for meta-analysis through their flexible and probabilistic treatment of uncertainty.There are several methodological challenges in evidence synthesis,
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The EuroCIM @eurocim.bsky.social · 11/03/2025
The EuroCIM program is live! Explore the sessions, speakers, and schedule here: www.eurocim.org/program.html. Get ready for an exciting conference! 🎉
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 11/03/2025
I think I sometimes write estimates are biased - they are the realisations of a biased estimator. But I know it's not strictly correct.
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 10/03/2025
It's OK you can name and shame me!
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Tim Morris @timpmorris.bsky.social · 06/03/2025
New post on dealing with missing baseline values in randomised trials that analyse change-from-baseline open.substack.com/pub/tpmorris...
'Missing baseline data when analysing change-from-baseline'
tpmorris.substack.com
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CAUSALab @causalab.org · 06/03/2025
Interested in using g-methods with time-varying confounders? 💡 Advanced Confounding Adjustment (ACA) teaches inverse probability weighting, parametric g-formula, & more. 📆 June 16-20, 2025 Taught by Joy Shi, Barbra Dickerman, @miguelhernan.org. Register now: causalab.hsph.harvard.edu/courses/
Advanced Confounding Adjustment (ACA). Dates June 16-20, 2025. Instructors: Joy Shi, Barbra Dickerman, Miguel Hernán.
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Pausal Zivference @pausalz.bsky.social · 06/03/2025
It's a weird time to post about my research given ongoing events, but I'm going to share a new preprint It's my 3rd paper in a series on synthesizing statistical and mathematical models, oriented to be more of an introduction with a NHANES example arxiv.org/abs/2503.02789
arxiv.org
Accounting for Missing Data in Public Health Research Using a Synthesis of Statistical and Mathematical Models
Introduction: Missing data is a challenge to medical research. Accounting for missing data by imputing or weighting conditional on covariates relies on the variable with missingness being observed at ...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 03/03/2025
addendum really gets into at all.
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 03/03/2025
That's a quote from the ICH E9 addendum I think there. I think this document has population estimands in mind rather than sample ones. But as others have rightly pointed out to me, trial participants are definitely not random samples from well defined populations, and this isn't something the...
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Jonathan Bartlett @jonathan-bartlett.bsky.social · 03/03/2025
What is meant by a 'while on treatment' estimand? thestatsgeek.com/2025/03/03/w...
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