Publications Syed Rakin Ahmed

Papers

Reproducible and clinically translatable deep neural networks for cervical screening.
Ahmed SR*, Befano B*, Lemay A et al.
Nature Sci Rep. 2023 Dec 8;13(1):21772
Power spectral analysis can determine language laterality from resting-state functional MRI data in healthy controls.
Ahmed SR, Jenabi M, Gene M, Moreno R, Peck K, Holodny A.
J Neuroimaging. 2023 Jul-Aug;33(4):661-670.
Radiotherapy-induced Cherenkov luminescence imaging in a human body phantom.
Ahmed SR, Jia JM, Bruza P, et al.
J Biomed Opt. 2018; 23(3):1-4.
Assessing generalizability of an AI-based visual test for cervical cancer screening.
Ahmed SR, Egemen D, Befano B, et al.
medRxiv, 2023.09. 26.23295263. submitted, under review at PLOS Digital Health (2024).
Generalizable deep neural networks for image quality classification of cervical images.
Ahmed SR, Befano B, Egemen D, et al.
Res. Sq. 2024. submitted, under review at Nature Digital Medicine (2024).
Estimating test performance for AI medical devices under distribution shift with conformal prediction.
Ahmed SR*, Lu C*, Singh P et al
arXiv preprint arXiv:2207.05796. submitted, in-review (2023)
Frequency-Domain Resting State fMRI Analysis Demonstrates Language Lateralization in Healthy Controls.
Ahmed SR, Jenabi M, Gene M, Moreno R, Peck K, Holodny A.
American Society of Neuroradiology (ASNR) 58th Annual Meeting. 2020.
Patient-specific, mechanistic models of tumor growth incorporating artificial intelligence and big data.
Lorenzo G, Ahmed SR, Hormuth D, et al.
Annu Rev Biomed Eng. 2024 Apr 9.
Artificial intelligence applied to musculoskeletal oncology: a systematic review.
Li MD, Ahmed SR, Choy E, Lozano-Calderon SA, Kalpathy-Cramer J, Chang CY
Skeletal Radiol. 2022;51(2):245-256.
Inconsistent Partitioning and Unproductive Feature Associations Yield Idealized Radiomic Models.
Gidwani M, Chang K, Patel J, Hoebel KV, Ahmed SR, et al.
Radiology. 2022: 220715
Opportunities and Challenges for Deep Learning in Brain Lesions.
Patel J, Chang K, Ahmed SR, Jang I, Kalpathy-Cramer J.
In: Crimi, A., Bakas, S. (eds) Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries. BrainLes 2021. Lecture Notes in Computer Science, vol 12962. Springer, Cham.
Systemic coagulation is activated in patients with meningioma and glioblastoma.
Yerrabothala S, Gourley BL, Ford JC, Ahmed SR, et al
J Neurooncol. 2021;155(2):173-180.
An assessment of the feasibility of local oxygen sensing with radiotherapy induced luminescence from Cherenkov sheet imaging.
Ahmed SR
Honors Thesis. Web. 2018.
Abnormal vascular structure and function within brain metastases is linked to pembrolizumab resistance.
Kim A, Lou K, ..., Ahmed SR, et al.
Neuro Oncol. 2023 Dec 9:noad236
Use of risk-based cervical screening programs in resource-limited settings.
Perkins RB, Smith DL, ..., Ahmed SR et al.
Cancer Epidemiol. 2023 Jun;84:102369.
AI-based image analysis in clinical testing: lessons from cervical cancer screening.
Egemen D, Perkins R, ..., Ahmed SR, et al.
J Natl Cancer Inst. 2023 Sep 27:djad202.
Design of the HPV-Automated Visual Evaluation (PAVE) Study: Validating a Novel Cervical Screening Strategy.
de Sanjose S, Perkins R, ..., Ahmed SR, et al.
eLife (2023). 12:RP91469
Coagulation Activation in Brain Neoplasms
Yerrabothala S, Gourley B, ..., Ahmed SR, et al.
Blood. 2017;130 (Supplement 1).
Improving the repeatability of deep learning models using novel loss function combination and optimization approaches.
Ahmed SR, Lemay A, Hoebel K et al.
submitted, in-review (2023).
Design and multi-rater evaluation of a cervical visual treatability classifier.
Ahmed SR, Jeronimo J, Hansen N, et al.
in preparation for submission (2023).
CervSSL: foundation models for cervical cancer screening using self-supervised learning.
Ahmed SR*, Clark C*, Singh P et al.
in preparation for submission (2023).
An assessment of novel distance metric correlation with out-of-distribution performance of deep learning models.
Ahmed SR, Lu C, Clark C, et al.
in preparation for submission (2023).
A robust, tiered deep neural network for detection of actionable genomic alterations in brain metastases.
Ahmed SR*, Brahmavar SB*, Bridge C, et al.
in preparation for submission (2023).
Automatic deep learning-based segmentation and treatment response assessment of brain metastases on magnetic resonance imaging.
Patel J, Gidwani M, ..., Ahmed SR, et al.
submitted, in-review (2023).
AdrenoBERT: automated multiclass categorization of adrenal abnormalities from free-text radiology reports using transformer language models.
Raghavan S, Singh P, ..., Ahmed SR et al.
submitted, in-review (2023).
Federated learning for prostate cancer vendor neutral models.
Pulido-Arias D, Cleveland M, ..., Ahmed SR et al
submitted (2023).
Addressing catastrophic forgetting for medical domain expansion.
Gupta S, Singh P, ..., Ahmed SR, et al.
submitted (2023).
A diffusion-inspired self-supervised framework for affine medical image registration.
Veturi YA, Ahmed SR, Singh P, Kalpathy-Cramer J et al.
in preparation for submission (2023).
The process of disentangling AI features associates with race and ethnicity in retinal images.
Tyagi R, Singh P, ..., Ahmed SR, et al.
in preparation for submission (2023).
Evaluation of a novel contrast mechanism utilizing nanoparticles as contrast agents for electrical property imaging of the prostate and breast
Ahmed SR, Halter R*
NIH-R21 Grant Proposal Draft (*working towards submission)

Presentations and Symposia

A deep learning framework enables non-invasive detection of tumor mutational burden in brain metastases.
Ahmed SR, Brahmavar S, Bridge C, et al.
Radiological Society of North America (RSNA) 2023 Annual Meeting.
A deep learning-based framework for joint image registration and segmentation of brain metastases on magnetic resonance imaging.
Patel J, Ahmed SR, Chang K, et al.
Machine Learning for Healthcare (MLHC) 2023
Focal loss improves clinical deployability of deep learning models.
Ahmed SR, Lemay A, Hoebel K, Kalpathy-Cramer J.
Radiological Society of North America (RSNA) 2022 Annual Meeting; Program pp 456, 461
Estimating test performance for AI medical devices under distribution shift with conformal prediction.
Ahmed SR*, Lu C*, Singh P, Kalpathy-Cramer J.
International Conference on Machine Learning (ICML) 2022: Principles of Distribution Shift (PODS) Workshop, Baltimore, MD, US.
Focal loss improves repeatability of deep learning models.
Ahmed SR, Lemay A, Hoebel K, Kalpathy-Cramer J.
Medical Imaging with Deep Learning (MIDL) 2022, ETH, Zurich, Switzerland.
Frequency-Domain Resting State fMRI Analysis to Investigate Language and Handmotor Cortices in Healthy Controls.
Ahmed SR, Jenabi M, Gene M, Moreno R, Peck K, Holodny A.
Annual Geisel Poster Presentation Night 2020, Dartmouth-Hitchcock Medical Center, Lebanon, NH, US.
Frequency-Domain Resting State fMRI Analysis to Investigate Language and Handmotor Cortices in Healthy Controls.
Ahmed SR, Jenabi M, Gene M, Moreno R, Peck K, Holodny A.
MSK Medical Student Summer Fellowship Research Symposium 2019, MSKCC, New York, NY, US
Deep learning-based non-invasive molecular profiling of brain metastases from MR imaging.
Bhat S, Goncalves T, Ahmed SR, et al.
The 21st International Symposium on Biomedical Imaging (ISBI) 2024, Athens, Greece
Implications for squamocolumnar junction visibility on the performance of Automated Visual Evaluation algorithm for cervical cancer screening
Desai K, Befano B, Ahmed SR, et al.
International Papillomavirus Conference (IPVC) 2024
Deep learning-based cervical cancer visual evaluation test: designing the test result as 2-class or 3-class.
Egemen D, Befano B, Rodriguez AC, Ahmed SR, et al.
International Papillomavirus Conference (IPVC) 2023
Conformal prediction and Monte Carlo inference for addressing uncertainty in cervical cancer screening.
Clark C, Kinder S, Egemen D, Befano B, Desai K, Ahmed SR, et al.
27th MICCAI 2024 conference, Marrakesh, Morocco.
Deep learning-based prediction of breast cancer tumor and immune phenotypes from digitized histopathology.
Goncalves T, Kim A, ..., Ahmed SR, et al.
The 38th Annual AAAI Conference on Artificial Intelligence (2024).
A deep learning algorithm for fully automated volumetric measurement of meningioma burden.
Cleveland M, Kim A, ..., Ahmed SR, et al.
Society for NeuroOncology 28th Annual Meeting (2023) and MIT/MGB AI Cures Conference 2024.
Coagulation Activation in Brain Neoplasms.
Yerrabothala S, Gourley BL, Ford JC, Ahmed SR, et al.
59th American Society of Hematology (ASH) Annual Meeting and Exposition 2017, Atlanta, GA, US.
Neurovascular Coupling in Normal Brain and in Disease: A Multimodal Imaging Approach.
Ahmed SR, Diamond S.
25th Annual Karen E. Wetterhahn Science Symposium 2016, Dartmouth College, Hanover, NH, US.
Hamiltonian Dynamics of Love Triangles.
Ahmed SR, Ezroura N.
Annual Mathematics Department Poster Session 2017, Dartmouth College, Hanover, NH, US.
Self-supervision and diabetic retinopathy.
Clark C, Ahmed SR, Singh P et al.
The Association for Research in Vision and Opthalmology (ARVO) 2024 Annual Meeting
Unravelling the effectiveness of AI-based race prediction model.
Rathi L, ..., Ahmed SR, et al.
submitted (2023)
Monitoring disease progression with stable diffusion: a visual approach.
Kumar S, ..., Ahmed SR, et al.
submitted (2023)