Fetal brain volumetry through MRI volumetric reconstruction and segmentation

  • Ali Gholipour
  • Judy A. Estroff
  • Carol E. Barnewolt
  • Susan A. Connolly
  • Simon K. Warfield
Original Article

Abstract

Purpose

Fetal MRI volumetry is a useful technique but it is limited by a dependency upon motion-free scans, tedious manual segmentation, and spatial inaccuracy due to thick-slice scans. An image processing pipeline that addresses these limitations was developed and tested.

Materials and methods

The principal sequences acquired in fetal MRI clinical practice are multiple orthogonal single-shot fast spin echo scans. State-of-the-art image processing techniques were used for inter-slice motion correction and super-resolution reconstruction of high-resolution volumetric images from these scans. The reconstructed volume images were processed with intensity non-uniformity correction and the fetal brain extracted by using supervised automated segmentation.

Results

Reconstruction, segmentation and volumetry of the fetal brains for a cohort of twenty-five clinically acquired fetal MRI scans was done. Performance metrics for volume reconstruction, segmentation and volumetry were determined by comparing to manual tracings in five randomly chosen cases. Finally, analysis of the fetal brain and parenchymal volumes was performed based on the gestational age of the fetuses.

Conclusion

The image processing pipeline developed in this study enables volume rendering and accurate fetal brain volumetry by addressing the limitations of current volumetry techniques, which include dependency on motion-free scans, manual segmentation, and inaccurate thick-slice interpolation.

Keywords

Fetal MRI Brain volumetry Image reconstruction Segmentation 

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References

  1. 1.
    Reddy UM, Filly RA, Copel JA (2008) Prenatal imaging: ultrasonography and magnetic resonance imaging. Obstet Gynecol 112(1): 145–157PubMedCrossRefGoogle Scholar
  2. 2.
    Coakley FV, Glenn OA, Qayyum A, Barkovich AJ, Goldstein R, Filly RA (2004) Fetal MRI: a developing technique for the developing patient. AJR Am J Roentgenol 182(1): 243–252PubMedGoogle Scholar
  3. 3.
    Guibaud L (2009) Contribution of fetal cerebral MRI for diagnosis of structural anomalies. Prenat Diagn 29(4): 420–433PubMedCrossRefGoogle Scholar
  4. 4.
    Garel C (2008) Imaging the fetus: when does MRI really help. Pediatr Radiol 3(38 Suppl): S467–S470CrossRefGoogle Scholar
  5. 5.
    Garel C (2005) Fetal cerebral biometry: normal parenchymal findings and ventricular size. Eur Radiol 15(4): 809–813PubMedCrossRefGoogle Scholar
  6. 6.
    Tilea B, Alberti C, Adamsbaum C, Armoogum P, Oury JF, Cabrol D, Sebag G, Kalifa G, Garel C (2009) Cerebral biometry in fetal magnetic resonance imaging: new reference data. Ultrasound Obstet Gynecol 33(2): 173–181PubMedCrossRefGoogle Scholar
  7. 7.
    Chang CH, Yu CH, Chang FM, Ko HC, Chen HY (2003) The assessment of normal fetal brain volume by 3-D ultrasound. Ultrasound Med Biol 29(9): 1267–1272PubMedCrossRefGoogle Scholar
  8. 8.
    Kazan-Tannus JF, Dialani V, Kataoka ML, Chiang G, Feldman HA, Brown JS, Levine D (2007) MR volumetry of brain and CSF in fetuses referred for ventriculomegaly. AJR Am J Roentgenol 189(1): 145–151PubMedCrossRefGoogle Scholar
  9. 9.
    Roberts N, Garden AS, Cruz-Orive LM, Whitehouse GH, Edwards RH (1994) Estimation of fetal volume by magnetic resonance imaging and stereology. Br J Radiol 67(803): 1067–1077PubMedCrossRefGoogle Scholar
  10. 10.
    Baker PN, Johnson IR, Gowland PA, Hykin J, Adams V, Mansfield P, Worthington BS (1995) Measurement of fetal liver, brain and placental volumes with echo-planar magnetic resonance imaging. Br J Obstet Gynaecol 102(1): 35–39PubMedCrossRefGoogle Scholar
  11. 11.
    Gong QY, Roberts N, Garden AS, Whitehouse GH (1998) Fetal and fetal brain volume estimation in the third trimester of human pregnancy using gradient echo MR imaging. Magn Reson Imaging 16(3): 235–240PubMedCrossRefGoogle Scholar
  12. 12.
    Schierlitz L, Dumanli H, Robinson JN, Burrows PE, Schreyer AG, Kikinis R, Jolesz FA, Tempany CM (2001) Three-dimensional magnetic resonance imaging of fetal brains. Lancet 357: 1177–1178PubMedCrossRefGoogle Scholar
  13. 13.
    Endres LK, Cohen L (2001) Reliability and validity of three-dimensional fetal brain volumes. J Ultrasound Med 20: 1265–1269PubMedGoogle Scholar
  14. 14.
    Kinoshita Y, Okudera T, Tsuru E, Yokota A (2001) Volumetric analysis of the germinal matrix and lateral ventricles performed using MR images of postmortem fetuses. AJNR Am J Neuroradiol 22(2): 382–388PubMedGoogle Scholar
  15. 15.
    Roelfsema NM, Hop WC, Boito SM, Wladimiroff JW (2004) Three-dimensional sonographic measurement of normal fetal brain volume during the second half of pregnancy. Am J Obstet Gynecol 190(1): 275–280PubMedCrossRefGoogle Scholar
  16. 16.
    Boito S, Struijk PC, Ursem NT, Fedele L, Wladimiroff JW (2003) Fetal brain/liver volume ratio and umbilical volume flow parameters relative to normal and abnormal human development. Ultrasound Obstet Gynecol 21(3): 256–261PubMedCrossRefGoogle Scholar
  17. 17.
    Gholipour A, Warfield SK (2009) Super-resolution reconstruction of fetal brain MRI. In: Studholme C, Rousseau F (eds) MICCAI Workshop on Image Analysis for the Developing Brain (IADB’2009). London, UK, pp 45–52, 24 Sept 2009 [Online]. Available: http://www.crl.med.harvard.edu/publications/SR-Fetal-Brain-MRI-IADB-MICCAI2009.pdf
  18. 18.
    Gholipour A Estroff JA, Warfield SK (2010) Robust super-resolution volume reconstruction from slice acquisitions: application to fetal brain MRI. IEEE Trans Med Imaging. doi:10.1109/TMI.2010.2051680 (in press)
  19. 19.
    Rousseau F, Glenn OA, Iordanova B, Rodriguez-Carranza C, Vigneron DB, Barkovich JA, Studholme C (2006) Registration-based approach for reconstruction of high-resolution in utero fetal mr brain images. Acad Radiol 13(9): 1072–1081PubMedCrossRefGoogle Scholar
  20. 20.
    Jiang S, Xue H, Glover A, Rutherford M, Rueckert D, Hajnal J (2007) MRI of moving subjects using multislice snapshot images with volume reconstruction (SVR): application to fetal, neonatal, and adult brain studies. IEEE Trans Med Imaging 26(7): 967–980PubMedCrossRefGoogle Scholar
  21. 21.
    Prayer D, Brugger PC, Prayer L (2004) Fetal MRI: techniques and protocols. Pediatr Radiol 34: 685–693PubMedCrossRefGoogle Scholar
  22. 22.
    Lee S, Wolberg G, Shin S (1997) Scattered data interpolation with multilevel b-splines. IEEE Trans Vis Comput Graph 3(3): 228–244CrossRefGoogle Scholar
  23. 23.
    Kim K, Habas PA, Rousseau F, Glenn OA, Barkovich AJ, Studholme C (2010) Intersection based motion correction of multislice MRI for 3D in utero fetal brain image formation. IEEE Trans Med Imag 29(1):146–158Google Scholar
  24. 24.
    Levine D, Barnes PD, Robertson RR, Wong G, Mehta TS (2003) Fast MR imaging of fetal central nervous system abnormalities. Radiology 229: 51–61PubMedCrossRefGoogle Scholar
  25. 25.
    Mangin J (2000) Entropy minimization for automatic correction of intensity nonuniformity. In: Proceedings of the of the IEEE workshop on mathematical methods in biomedical image analysis. p 162Google Scholar
  26. 26.
  27. 27.
  28. 28.
    Liao P, Chen T, Chung P (2001) A fast algorithm for multilevel thresholding. J Inf Sci Eng 17(5): 713–727Google Scholar
  29. 29.
    Caselles V, Kimmel R, Sapiro G (1997) Geodesic active contours. Int J Comput Vis 22(1): 61–97CrossRefGoogle Scholar
  30. 30.
    Sethian JA (1999) Level set methods and fast marching methods: evolving interfaces in computational geometry, fluid mechanics, computer vision, and materials science. Cambridge University Press. ISBN 0-521-64557-3Google Scholar
  31. 31.
    Malladi R, Sethian JA, Vemuri BC (1995) Shape modeling with front propagation: a level set approach. IEEE Trans Pattern Anal Mach Intell 17(2): 158–175CrossRefGoogle Scholar
  32. 32.
    Whitaker RT (1998) A level-set approach to 3D reconstruction from range data. Int J Comput Vis 29(3): 203–231CrossRefGoogle Scholar
  33. 33.
    Subbarao M, Choi T, Nikzad A (1992) Focusing techniques. J Opt Eng 32: 2824–2836CrossRefGoogle Scholar

Copyright information

© CARS 2010

Authors and Affiliations

  • Ali Gholipour
    • 1
  • Judy A. Estroff
    • 1
  • Carol E. Barnewolt
    • 1
  • Susan A. Connolly
    • 1
  • Simon K. Warfield
    • 1
  1. 1.Department of RadiologyChildren’s Hospital Boston and Harvard Medical SchoolBostonUSA

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