Muhammad Febrian Rachmadi

Mr. Muhammad Febrian Rachmadi

orcid

Research Focus & Metrics

Academic Career Length

16Years (2011-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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1 June 2018 in Computerized Medical Imaging and Graphics
Verified
Journal Article
Closed access
MRMuhammad Febrian Rachmadi
Muhammad Febrian Rachmadi
MVMaria del C. Valdés-Hernández
Maria del C. Valdés-Hernández
MAMaria Leonora Fatimah Agan
Maria Leonora Fatimah Agan
CPCarol Di Perri
Carol Di Perri
TKTaku Komura
Taku Komura

1 July 2020 in Medical Image Analysis
Verified
Journal Article
Open access
MRMuhammad Febrian Rachmadi
Muhammad Febrian Rachmadi
MHMaria Del C. Valdés Hernández
Maria Del C. Valdés Hernández
SMStephen Makin
Stephen Makin
JWJoanna M Wardlaw
Joanna M Wardlaw
TKTaku Komura
Taku Komura
Previous studies have indicated that white matter hyperintensities (WMH), the main radiological feature of small vessel disease, may evolve (i.e., shrink, grow) or stay stable over a period of time. Predicting these changes are challenging because it involves some unknown clinical risk factors that leads to a non-deterministic prediction task. In this study, we propose a deep learning model to predict the evolution of WMH from baseline to follow-up (i.e., 1-year later), namely "Disease Evolution Predictor" (DEP) model, which can be adjusted to become a non-deterministic model. The DEP model receives a baseline image as input and produces a map called "Disease Evolution Map" (DEM), which represents the evolution of WMH from baseline to follow-up. Two DEP models are proposed, namely DEP-UResNet and DEP-GAN, which are representatives of the supervised (i.e., need expert-generated manual labels to generate the output) and unsupervised (i.e., do not require manual labels produced by experts) deep learning algorithms respectively. To simulate the non-deterministic and unknown parameters involved in WMH evolution, we modulate a Gaussian noise array to the DEP model as auxiliary input. This forces the DEP model to imitate a wider spectrum of alternatives in the prediction results. The alternatives of using other types of auxiliary input instead, such as baseline WMH and stroke lesion loads are also proposed and tested. Based on our experiments, the fully supervised machine learning scheme DEP-UResNet regularly performed better than the DEP-GAN which works in principle without using any expert-generated label (i.e., unsupervised). However, a semi-supervised DEP-GAN model, which uses probability maps produced by a supervised segmentation method in the learning process, yielded similar performances to the DEP-UResNet and performed best in the clinical evaluation. Furthermore, an ablation study showed that an auxiliary input, especially the Gaussian noise, improved the performance of DEP models compared to DEP models that lacked the auxiliary input regardless of the model's architecture. To the best of our knowledge, this is the first extensive study on modelling WMH evolution using deep learning algorithms, which deals with the non-deterministic nature of WMH evolution.

1 November 2011
Verified
Conference Paper
Closed access
MRMuhammad Febrian Rachmadi
Muhammad Febrian Rachmadi
FAFaris Al Afif
Faris Al Afif
WJWisnu Jatmiko
Wisnu Jatmiko
PMPetrus Mursanto
Petrus Mursanto
EME A Manggala
E A Manggala
AWAdi Wibowo
Adi Wibowo
Adaptive traffic signal control system is needed to avoid traffic congestion that has many disadvantages. This paper presents an adaptive traffic signal control system using camera as an input sensor that providing real-time traffic data. Principal Component Analysis (PCA) is used to analyze and to classify object on video frame for detecting vehicles. Distributed Constraint Satisfaction Problem (DCSP) method determine the duration of each traffic signal, based on counted number of vehicles at each lane. The system is implemented in embedded systems using BeagleBoard™.

17 March 2023 in Scientific Data
Verified
Journal Article
Open access
PDF file
CPCharissa Poon
Charissa Poon
PTPetteri Teikari
Petteri Teikari
MRMuhammad Febrian Rachmadi
Muhammad Febrian Rachmadi
HSHenrik Skibbe
Henrik Skibbe
KHKullervo Hynynen
Kullervo Hynynen
We present MiniVess, the first annotated dataset of rodent cerebrovasculature, acquired using two-photon fluorescence microscopy. MiniVess consists of 70 3D image volumes with segmented ground truths. Segmentations were created using traditional image processing operations, a U-Net, and manual proofreading. Code for image preprocessing steps and the U-Net are provided. Supervised machine learning methods have been widely used for automated image processing of biomedical images. While much emphasis has been placed on the development of new network architectures and loss functions, there has been an increased emphasis on the need for publicly available annotated, or segmented, datasets. Annotated datasets are necessary during model training and validation. In particular, datasets that are collected from different labs are necessary to test the generalizability of models. We hope this dataset will be helpful in testing the reliability of machine learning tools for analyzing biomedical images.

29 May 2019 in Frontiers in Neuroinformatics
Verified
Journal Article
Open access
CMCarlos Uziel Pérez Malla
Carlos Uziel Pérez Malla
MHMaria Del C. Valdés Hernández
Maria Del C. Valdés Hernández
MRMuhammad Febrian Rachmadi
Muhammad Febrian Rachmadi
TKTaku Komura
Taku Komura
Magnetic resonance (MR) perfusion imaging non-invasively measures cerebral perfusion, which describes the blood's passage through the brain's vascular network. Therefore it is widely used to assess cerebral ischaemia. Convolutional Neural Networks (CNN) constitute the state-of-the-art method in automatic pattern recognition and hence, in segmentation tasks. But none of the CNN architectures developed to date have achieved high accuracy when segmenting ischaemic stroke lesions, being the main reasons their heterogeneity in location, shape, size, image intensity and texture, especially in this imaging modality. We use a freely available CNN framework, developed for MR imaging lesion segmentation, as core algorithm to evaluate the impact of enhanced machine learning techniques, namely data augmentation, transfer learning and post-processing, in the segmentation of stroke lesions using the ISLES 2017 dataset, which contains expert annotated diffusion-weighted perfusion and diffusion brain MRI of 43 stroke patients. Of all the techniques evaluated, data augmentation with binary closing achieved the best results, improving the mean Dice score in 17\% over the baseline model. Consistent with previous works, better performance was obtained in the presence of large lesions.

1 January 2020 in Computerized Medical Imaging and Graphics
Verified
Journal Article
Closed access
MRMuhammad Febrian Rachmadi
Muhammad Febrian Rachmadi
MVMaria del C. Valdés-Hernández
Maria del C. Valdés-Hernández
HLHongwei Bran Li
Hongwei Bran Li
RGRicardo Guerrero
Ricardo Guerrero
RMRozanna Meijboom
Rozanna Meijboom
TKTaku Komura
Taku Komura