Recurrent Saliency Transformation Network for Tiny Target Segmentation in Abdominal CT Scans

Lingxi Xie, Qihang Yu, Yuyin Zhou, Yan Wang, Elliot K. Fishman, Alan L. Yuille

Research output: Contribution to journalArticlepeer-review

Abstract

We aim at segmenting a wide variety of organs, including tiny targets (e.g., adrenal gland), and neoplasms (e.g., pancreatic cyst), from abdominal CT scans. This is a challenging task in two aspects. First, some organs (e.g., the pancreas), are highly variable in both anatomy and geometry, and thus very difficult to depict. Second, the neoplasms often vary a lot in its size, shape, as well as its location within the organ. Third, the targets (organs and neoplasms) can be considerably small compared to the human body, and so standard deep networks for segmentation are often less sensitive to these targets and thus predict less accurately especially around their boundaries. In this paper, we present an end-to-end framework named recurrent saliency transformation network (RSTN) for segmenting tiny and/or variable targets. The RSTN is a coarse-to-fine approach that uses prediction from the first (coarse) stage to shrink the input region for the second (fine) stage. A saliency transformation module is inserted between these two stages so that 1) the coarse-scaled segmentation mask can be transferred as spatial weights and applied to the fine stage and 2) the gradients can be back-propagated from the loss layer to the entire network so that the two stages are optimized in a joint manner. In the testing stage, we perform segmentation iteratively to improve accuracy. In this extended journal paper, we allow a gradual optimization to improve the stability of the RSTN, and introduce a hierarchical version named H-RSTN to segment tiny and variable neoplasms such as pancreatic cysts. Experiments are performed on several CT datasets including a public pancreas segmentation dataset, our own multi-organ dataset, and a cystic pancreas dataset. In all these cases, the RSTN outperforms the baseline (a stage-wise coarse-to-fine approach) significantly. Confirmed by the radiologists in our team, these promising segmentation results can help early diagnosis of pancreatic cancer. The code and pre-trained models of our project were made available at https://github.com/198808xc/OrganSegRSTN.

Original languageEnglish (US)
Article number8769868
Pages (from-to)514-525
Number of pages12
JournalIEEE transactions on medical imaging
Volume39
Issue number2
DOIs
StatePublished - Feb 2020

Keywords

  • Semantic segmentation
  • abdominal CT scan
  • coarse-to-fine
  • deep neural network
  • saliency transformation

ASJC Scopus subject areas

  • Software
  • Radiological and Ultrasound Technology
  • Computer Science Applications
  • Electrical and Electronic Engineering

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