@lrsoenksen
  • Stars
    star
    133
  • Global Rank 167,567 (Top 6 %)
  • Followers 19
  • Registered almost 10 years ago
  • Most used languages
    Python
    80.0 %
    C++
    20.0 %
  • Location πŸ‡ΊπŸ‡Έ United States
  • Country Total Rank 36,821
  • Country Ranking
    Python
    6,706

Top repositories

1

HAIM

This repository contains the code to replicate the data processing, modeling and reporting of our Holistic AI in Medicine (HAIM) Publication in Nature Machine Intelligence (Soenksen LR, Ma Y, Zeng C et al. 2022).
Python
103
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2

SPL_UD_DL

A reported 96,480 people were diagnosed with melanoma in the United States in 2019, leading to 7230 reported deaths. Early-stage identification of suspicious pigmented lesions (SPLs) in primary care settings can lead to im- proved melanoma prognosis and a possible 20-fold reduction in treatment cost. Despite this clinical and economic value, efficient tools for SPL detection are mostly absent. To bridge this gap, we developed an SPL analysis system for wide-field images using deep convolutional neural networks (DCNNs) and applied it to a 38,283 dermatological dataset collected from 133 patients and publicly available images. These images were obtained from a variety of consumer-grade cameras (15,244 nondermoscopy) and classified by three board-certified dermatologists. Our system achieved more than 90.3% sensitivity (95% confidence interval, 90 to 90.6) and 89.9% specificity (89.6 to 90.2%) in distinguishing SPLs from nonsuspicious lesions, skin, and complex backgrounds, avoiding the need for cumbersome individual lesion imaging. We also present a new method to extract intrapatient lesion saliency (ugly duckling criteria) on the basis of DCNN features from detected lesions. This saliency ranking was validated against three board-certified dermatologists using a set of 135 individual wide-field images from 68 dermatolog- ical patients not included in the DCNN training set, exhibiting 82.96% (67.88 to 88.26%) agreement with at least one of the top three lesions in the dermatological consensus ranking. This method could allow for rapid and accurate assessments of pigmented lesion suspiciousness within a primary care visit and could enable improved patient triaging, utilization of resources, and earlier treatment of melanoma.
Python
30
star
3

CL_RNA_SynthBio

Code to reproduce Angenent-Mari, N. et al 2020. Deep Learning for RNA Synthetic Biology
Python
12
star
4

LRFinder

Automatic Learning Rate Scheduled for Tensorflow-Keras
Python
1
star
5

Gluco

Arduino Code and PCB fabrication files of GlucoPush V1
1
star
6

Gluco_Push_V1

Supplemental Material (GlucoPush: A Do-It-Yourself Add-On for Online Tracking of Personal Glucometer Use)
C++
1
star