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Grams, M. E.

Publications and source records attributed to Grams, M. E..

3 recordsLinked to original sources

Vision-Language Models for Image-Based Dietary Assessment: A Benchmark of Accuracy, Cost, and Prompt Strategies Across Ten Models

BackgroundDietary assessment is the cornerstone of clinical management and research studies evaluating diet and health. Traditional methods such as food diaries and 24-hour recalls can be burdensome, prone to recall bias, and difficult to adhere to. Image-based dietary assessment using vision-language models (VLMs) offers a potential solution. ObjectiveOur goal was to benchmark state-of-the-art VLMs for automated food recognition, weight estimation, and calorie estimation using Googles Nutrition5k dataset. MethodsWe evaluated 3,229 food images using ten approaches: proprietary VLMs (Gemini 2.0 Flash, 2.5 Flash, 3.0 Flash, and 3.1 Flash Lite; GPT- 4o, GPT-4o-mini, and GPT-5 Mini; and Claude Haiku 4.5), an open-source VLM (Qwen2-VL-7B), and a commercial food recognition API (FatSecret). We assessed calorie and weight estimation using Lins Concordance Correlation Coefficient (CCC) and component detection using Jaccard similarity. ResultsGemini 3.0 Flash achieved the best calorie estimation (CCC 0.767, MAE 80.7 kcal), while Gemini 3.1 Flash Lite offered very comparable accuracy (CCC 0.754) with the highest ingredient recognition (Jaccard 0.655) at the lowest cost among top-performing models ($0.59/1K images). Among earlier-generation models, Gemini 2.0 Flash remained competitive (CCC 0.742, Jaccard 0.621) at a fraction of the cost ($0.10/1K images). A human validation study in which four annotators reviewed 440 images revealed systematic omissions in the original Nutrition5k labels. After correction, the extrapolated ingredient-overlap score for Gemini 2.0 Flash increased from 0.62 to an estimated 0.82, suggesting that raw Jaccard scores substantially underestimate true model performance. ConclusionsCurrent VLMs can perform automated dietary assessment with reasonable accuracy from single overhead photographs. Our results inform model selection for dietary assessment applications and highlight remaining challenges in calorie estimation and component detection for complex, multi-item meals.

bioinformatics↗

Large Bi-Ethnic Study of Plasma Proteome Leads to Comprehensive Mapping of cis-pQTL and Models for Proteome-wide Association Studies

Improved understanding of genetic regulation of proteome can facilitate the identification of causal mechanisms for complex traits. We analyzed data on 4,657 plasma proteins from 7,213 European American (EA) and 1,871 African American (AA) individuals from the ARIC study, and further replicated findings on 467 AA individuals from the AASK study. Here we identified 2,004 proteins in EA and 1,618 in AA, with majority overlapping, which showed associations with common variants in cis-regions. Availability of AA samples led to smaller credible sets and significant number of population-specific cis-pQTLs. Elastic-net produced powerful models for protein prediction in both populations. An application of proteome-wide association studies (PWAS) to serum urate and gout, implicated several proteins, including IL1RN, revealing the promise of the drug anakinra to treat acute gout flares. Our study demonstrates the value of large and diverse ancestry study for genetic mechanisms of molecular phenotypes and their relationship with complex traits.

genetics↗

Polygenic Risk Scores for Kidney Function to the Circulating Proteome, and Incident Kidney Diseases: the Atherosclerosis Risk in Communities Study

Genome-wide association studies (GWAS) have revealed numerous loci for kidney function (estimated glomerular filtration rate, eGFR). The relationship of polygenic predictors of eGFR, risk of incident adverse kidney outcomes, and the plasma proteome is not known. We developed a genome-wide polygenic risk score (PRS) using a weighted average of 1.2 million SNPs for eGFR using the LDpred algorithm, summary statistics generated by a European-ancestry (EA) meta-analysis of the CKDGen Consortium (N=558,423) and UK Biobank GWAS for eGFR (90% of the cohort; N=289,432), followed by best parameter selection using data from the remaining 10% of the UK Biobank (N=32,159). We then tested the association of the PRS among 8,886 EA participants in the Atherosclerosis Risk in Communities (ARIC) study (mean age: 54{+/-}6 years, 53% female) with incident chronic kidney disease (CKD), end stage kidney disease (ESKD), kidney failure (KF), and acute kidney injury (AKI). We also examined 4,877 plasma proteins measured at two time points (visit 3 (1993-95) and visit 5 (2011-13)) in relation to the PRS and compared associations between the proteome and eGFR itself. All models were adjusted for age, sex, center, and the first 10 principal components of ancestry. The developed PRS had an R2 for eGFR of 0.07 in ARIC. Over 30 years of follow up, the number of incident CKD, ESKD, KF, and AKI were 2,959, 137, 470, and 1,723, respectively. The PRS showed significant associations with all outcomes: hazard ratios (95% CI) per 1 SD lower PRS were 1.33 (1.28, 1.39), 1.20 (1.00, 1.42), 1.17 (1.06, 1.28), and 1.07 (1.02, 1.12) for incident CKD, ESKD, KF, and AKI respectively. The PRS was significantly associated (Bonferroni threshold P<1.02 x 10-5) with 108 proteins at both time points. The strongest associations were with cystatin-C (a marker of kidney function used in clinical practice), collagen alpha-1 (XV) chain, and desmocollin-2. All significant correlations with the PRS were negative, except those of testican-2 and angiostatin. Correlations of proteins with eGFR were much stronger than those with the PRS. Overall, we demonstrated that the PRS for eGFR is now sufficiently strong to capture risk for a spectrum of incident kidney diseases as well as broadly influence the plasma proteome.

genetics↗