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Lumbar muscle and vertebral bodies segmentation of chemical shift encoding-based water-fat MRI: the reference database MyoSegmenTUM spine.

Burian E, Rohrmeier A, Schlaeger S, Dieckmeyer M, Diefenbach MN, Syväri J, Klupp E, Weidlich D, Zimmer C, Rummeny EJ, Karampinos DC, Kirschke JS, Baum T.

BMC Musculoskelet Disord. 2019 Apr 9;20(1):152. doi: 10.1186/s12891-019-2528-x.


Multi-detector CT imaging: impact of virtual tube current reduction and sparse sampling on detection of vertebral fractures.

Sollmann N, Mei K, Hedderich DM, Maegerlein C, Kopp FK, Löffler MT, Zimmer C, Rummeny EJ, Kirschke JS, Baum T, Noël PB.

Eur Radiol. 2019 Mar 22. doi: 10.1007/s00330-019-06090-2. [Epub ahead of print]


Re-targeting of a plant defense protease by a cyst nematode effector.

Pogorelko GV, Juvale PS, Rutter WB, Hütten M, Maier TR, Hewezi T, Paulus J, van der Hoorn RA, Grundler FM, Siddique S, Lionetti V, Zabotina OA, Baum TJ.

Plant J. 2019 Feb 23. doi: 10.1111/tpj.14295. [Epub ahead of print]


T2 mapping of lumbosacral nerves in patients suffering from unilateral radicular pain due to degenerative disc disease.

Sollmann N, Weidlich D, Cervantes B, Klupp E, Ganter C, Kooijman H, Zimmer C, Rummeny EJ, Meyer B, Baum T, Kirschke JS, Karampinos DC.

J Neurosurg Spine. 2019 Feb 22:1-9. doi: 10.3171/2018.10.SPINE181172. [Epub ahead of print]


Improved prediction of incident vertebral fractures using opportunistic QCT compared to DXA.

Löffler MT, Jacob A, Valentinitsch A, Rienmüller A, Zimmer C, Ryang YM, Baum T, Kirschke JS.

Eur Radiol. 2019 Feb 21. doi: 10.1007/s00330-019-06018-w. [Epub ahead of print]


3D grating-based X-ray phase-contrast computed tomography for high-resolution quantitative assessment of cartilage: An experimental feasibility study with 3T MRI, 7T MRI and biomechanical correlation.

Herzen J, Karampinos DC, Foehr P, Birnbacher L, Viermetz M, Burgkart R, Baum T, Lohoefer F, Wildgruber M, Schilling F, Willner M, Marschner M, Noël PB, Rummeny EJ, Pfeiffer F, Jungmann PM.

PLoS One. 2019 Feb 14;14(2):e0212106. doi: 10.1371/journal.pone.0212106. eCollection 2019.


DXA-equivalent quantification of bone mineral density using dual-layer spectral CT scout scans.

Laugerette A, Schwaiger BJ, Brown K, Frerking LC, Kopp FK, Mei K, Sellerer T, Kirschke J, Baum T, Gersing AS, Pfeiffer D, Fingerle AA, Rummeny EJ, Proksa R, Noël PB, Pfeiffer F.

Eur Radiol. 2019 Feb 13. doi: 10.1007/s00330-019-6005-6. [Epub ahead of print]


The genome of the soybean cyst nematode (Heterodera glycines) reveals complex patterns of duplications involved in the evolution of parasitism genes.

Masonbrink R, Maier TR, Muppirala U, Seetharam AS, Lord E, Juvale PS, Schmutz J, Johnson NT, Korkin D, Mitchum MG, Mimee B, den Akker SE, Hudson M, Severin AJ, Baum TJ.

BMC Genomics. 2019 Feb 7;20(1):119. doi: 10.1186/s12864-019-5485-8.


Paraspinal Muscle DTI Metrics Predict Muscle Strength.

Klupp E, Cervantes B, Schlaeger S, Inhuber S, Kreuzpointer F, Schwirtz A, Rohrmeier A, Dieckmeyer M, Hedderich DM, Diefenbach MN, Freitag F, Rummeny EJ, Zimmer C, Kirschke JS, Karampinos DC, Baum T.

J Magn Reson Imaging. 2019 Feb 5. doi: 10.1002/jmri.26679. [Epub ahead of print]


Heterodera glycines utilizes promiscuous spliced leaders and demonstrates a unique preference for a species-specific spliced leader over C. elegans SL1.

Barnes SN, Masonbrink RE, Maier TR, Seetharam A, Sindhu AS, Severin AJ, Baum TJ.

Sci Rep. 2019 Feb 4;9(1):1356. doi: 10.1038/s41598-018-37857-0.


Homeostasis in the soybean miRNA396-GRF network is essential for productive soybean cyst nematode infections.

Noon JB, Hewezi T, Baum TJ.

J Exp Bot. 2019 Mar 11;70(5):1653-1668. doi: 10.1093/jxb/erz022.


Longitudinal changes in subchondral bone structure as assessed with MRI are associated with functional outcome after high tibial osteotomy.

Gersing AS, Jungmann PM, Schwaiger BJ, Zarnowski J, Kopp FK, Landwehr S, Sauerschnig M, Joseph GB, Imhoff AB, Rummeny EJ, Kirschke JS, Baum T.

J ISAKOS. 2018 Jul 20;3(4):205-212. doi: 10.1136/jisakos-2017-000194. Epub 2018 Jun 28.


Differentiating supraclavicular from gluteal adipose tissue based on simultaneous PDFF and T2 * mapping using a 20-echo gradient-echo acquisition.

Franz D, Diefenbach MN, Treibel F, Weidlich D, Syväri J, Ruschke S, Wu M, Holzapfel C, Drabsch T, Baum T, Eggers H, Rummeny EJ, Hauner H, Karampinos DC.

J Magn Reson Imaging. 2019 Jan 25. doi: 10.1002/jmri.26661. [Epub ahead of print]


Quantitative magnetic resonance imaging of the upper trapezius muscles - assessment of myofascial trigger points in patients with migraine.

Sollmann N, Mathonia N, Weidlich D, Bonfert M, Schroeder SA, Badura KA, Renner T, Trepte-Freisleder F, Ganter C, Krieg SM, Zimmer C, Rummeny EJ, Karampinos DC, Baum T, Landgraf MN, Heinen F.

J Headache Pain. 2019 Jan 18;20(1):8. doi: 10.1186/s10194-019-0960-9.


Gender- and Age-Related Changes in Trunk Muscle Composition Using Chemical Shift Encoding-Based Water⁻Fat MRI.

Burian E, Syväri J, Holzapfel C, Drabsch T, Kirschke JS, Rummeny EJ, Zimmer C, Hauner H, Karampinos DC, Baum T, Franz D.

Nutrients. 2018 Dec 13;10(12). pii: E1972. doi: 10.3390/nu10121972.


Automated assessment of paraspinal muscle fat composition based on the segmentation of chemical shift encoding-based water/fat-separated images.

Baum T, Lorenz C, Buerger C, Freitag F, Dieckmeyer M, Eggers H, Zimmer C, Karampinos DC, Kirschke JS.

Eur Radiol Exp. 2018 Nov 7;2(1):32. doi: 10.1186/s41747-018-0065-2.


Differentiation of Acute/Subacute versus Old Vertebral Fractures in Multislice Detector Computed Tomography: Is Magnetic Resonance Imaging Always Needed?

Hedderich DM, Maegerlein C, Baum T, Hapfelmeier A, Ryang YM, Zimmer C, Kirschke JS.

World Neurosurg. 2019 Feb;122:e676-e683. doi: 10.1016/j.wneu.2018.10.121. Epub 2018 Oct 29.


An Effector from the Cyst Nematode Heterodera schachtii Derepresses Host rRNA Genes by Altering Histone Acetylation.

Vijayapalani P, Hewezi T, Pontvianne F, Baum TJ.

Plant Cell. 2018 Nov;30(11):2795-2812. doi: 10.1105/tpc.18.00570. Epub 2018 Oct 17.


Associations Between Lumbar Vertebral Bone Marrow and Paraspinal Muscle Fat Compositions-An Investigation by Chemical Shift Encoding-Based Water-Fat MRI.

Sollmann N, Dieckmeyer M, Schlaeger S, Rohrmeier A, Syvaeri J, Diefenbach MN, Weidlich D, Ruschke S, Klupp E, Franz D, Rummeny EJ, Zimmer C, Kirschke JS, Karampinos DC, Baum T.

Front Endocrinol (Lausanne). 2018 Sep 28;9:563. doi: 10.3389/fendo.2018.00563. eCollection 2018.


On the sensitivity of quantitative susceptibility mapping for measuring trabecular bone density.

Diefenbach MN, Meineke J, Ruschke S, Baum T, Gersing A, Karampinos DC.

Magn Reson Med. 2019 Mar;81(3):1739-1754. doi: 10.1002/mrm.27531. Epub 2018 Sep 28.


Effect of Statistically Iterative Image Reconstruction on Vertebral Bone Strength Prediction Using Bone Mineral Density and Finite Element Modeling: A Preliminary Study.

Anitha D, Subburaj K, Kopp FK, Mei K, Foehr P, Burgkart R, Sollmann N, Maegerlein C, Kirschke JS, Noel PB, Baum T.

J Comput Assist Tomogr. 2019 Jan/Feb;43(1):61-65. doi: 10.1097/RCT.0000000000000788.


MDCT-based Finite Element Analysis of Vertebral Fracture Risk: What Dose is Needed?

Anitha D, Mei K, Dieckmeyer M, Kopp FK, Sollmann N, Zimmer C, Kirschke JS, Noel PB, Baum T, Subburaj K.

Clin Neuroradiol. 2018 Aug 21. doi: 10.1007/s00062-018-0722-0. [Epub ahead of print]


Correction to: STATAWAARS: a promoter motif associated with spatial expression in the major effector-producing tissues of the plantparasitic nematode Bursaphelenchus xylophilus.

Espada M, den Akker SE, Maier T, Vijayapalani P, Baum T, Mota M, Jones JT.

BMC Genomics. 2018 Aug 10;19(1):603. doi: 10.1186/s12864-018-4990-5.


Reliable semiquantitative whole-joint MRI score for the shoulder joint: The shoulder osteoarthritis severity (SOAS) score.

Jungmann PM, Gersing AS, Woertler K, Dietrich TJ, Baum T, Baumann F, Bensler S.

J Magn Reson Imaging. 2018 Aug 5. doi: 10.1002/jmri.26251. [Epub ahead of print]


STATAWAARS: a promoter motif associated with spatial expression in the major effector-producing tissues of the plant-parasitic nematode Bursaphelenchus xylophilus.

Espada M, Eves-van den Akker S, Maier T, Vijayapalani P, Baum T, Mota M, Jones JT.

BMC Genomics. 2018 Jul 27;19(1):553. doi: 10.1186/s12864-018-4908-2. Erratum in: BMC Genomics. 2018 Aug 10;19(1):603.


Improved Brachial Plexus Visualization Using an Adiabatic iMSDE-Prepared STIR 3D TSE.

Klupp E, Cervantes B, Sollmann N, Treibel F, Weidlich D, Baum T, Rummeny EJ, Zimmer C, Kirschke JS, Karampinos DC.

Clin Neuroradiol. 2018 Jul 23. doi: 10.1007/s00062-018-0706-0. [Epub ahead of print]


Association of paraspinal muscle water-fat MRI-based measurements with isometric strength measurements.

Schlaeger S, Inhuber S, Rohrmeier A, Dieckmeyer M, Freitag F, Klupp E, Weidlich D, Feuerriegel G, Kreuzpointner F, Schwirtz A, Rummeny EJ, Zimmer C, Kirschke JS, Karampinos DC, Baum T.

Eur Radiol. 2019 Feb;29(2):599-608. doi: 10.1007/s00330-018-5631-8. Epub 2018 Jul 16.


Acute infarction after mechanical thrombectomy is better delineable in virtual non-contrast compared to conventional images using a dual-layer spectral CT.

Riederer I, Fingerle AA, Baum T, Kirschke JS, Rummeny EJ, Noël PB, Pfeiffer D.

Sci Rep. 2018 Jun 19;8(1):9329. doi: 10.1038/s41598-018-27437-7.


Thigh muscle segmentation of chemical shift encoding-based water-fat magnetic resonance images: The reference database MyoSegmenTUM.

Schlaeger S, Freitag F, Klupp E, Dieckmeyer M, Weidlich D, Inhuber S, Deschauer M, Schoser B, Bublitz S, Montagnese F, Zimmer C, Rummeny EJ, Karampinos DC, Kirschke JS, Baum T.

PLoS One. 2018 Jun 7;13(6):e0198200. doi: 10.1371/journal.pone.0198200. eCollection 2018.


Magnetic Resonance Imaging of Adipose Tissue in Metabolic Dysfunction.

Franz D, Syväri J, Weidlich D, Baum T, Rummeny EJ, Karampinos DC.

Rofo. 2018 Dec;190(12):1121-1130. doi: 10.1055/a-0612-8006. Epub 2018 Jun 6. Review.


Quasi-Orbital Angular Momentum (Q-OAM) Generated by Quasi-Circular Array Antenna (QCA).

Fouda RM, Baum TC, Ghorbani K.

Sci Rep. 2018 May 30;8(1):8363. doi: 10.1038/s41598-018-26733-6.


Three-material decomposition with dual-layer spectral CT compared to MRI for the detection of bone marrow edema in patients with acute vertebral fractures.

Schwaiger BJ, Gersing AS, Hammel J, Mei K, Kopp FK, Kirschke JS, Rummeny EJ, Wörtler K, Baum T, Noël PB.

Skeletal Radiol. 2018 Nov;47(11):1533-1540. doi: 10.1007/s00256-018-2981-x. Epub 2018 May 25.


The novel cyst nematode effector protein 30D08 targets host nuclear functions to alter gene expression in feeding sites.

Verma A, Lee C, Morriss S, Odu F, Kenning C, Rizzo N, Spollen WG, Lin M, McRae AG, Givan SA, Hewezi T, Hussey R, Davis EL, Baum TJ, Mitchum MG.

New Phytol. 2018 Jul;219(2):697-713. doi: 10.1111/nph.15179. Epub 2018 May 4.


The plant-parasitic cyst nematode effector GLAND4 is a DNA-binding protein.

Barnes SN, Wram CL, Mitchum MG, Baum TJ.

Mol Plant Pathol. 2018 Oct;19(10):2263-2276. doi: 10.1111/mpp.12697. Epub 2018 Jul 26.


Anatomical Variation of Age-Related Changes in Vertebral Bone Marrow Composition Using Chemical Shift Encoding-Based Water-Fat Magnetic Resonance Imaging.

Baum T, Rohrmeier A, Syväri J, Diefenbach MN, Franz D, Dieckmeyer M, Scharr A, Hauner H, Ruschke S, Kirschke JS, Karampinos DC.

Front Endocrinol (Lausanne). 2018 Apr 4;9:141. doi: 10.3389/fendo.2018.00141. eCollection 2018.


Multidetector Computed Tomography Imaging: Effect of Sparse Sampling and Iterative Reconstruction on Trabecular Bone Microstructure.

Mookiah MRK, Subburaj K, Mei K, Kopp FK, Kaesmacher J, Jungmann PM, Foehr P, Noel PB, Kirschke JS, Baum T.

J Comput Assist Tomogr. 2018 May/Jun;42(3):441-447. doi: 10.1097/RCT.0000000000000710.


Identification of candidate effector genes of Pratylenchus penetrans.

Vieira P, Maier TR, Eves-van den Akker S, Howe DK, Zasada I, Baum TJ, Eisenback JD, Kamo K.

Mol Plant Pathol. 2018 Feb 9. doi: 10.1111/mpp.12666. [Epub ahead of print]


Novel global effector mining from the transcriptome of early life stages of the soybean cyst nematode Heterodera glycines.

Gardner M, Dhroso A, Johnson N, Davis EL, Baum TJ, Korkin D, Mitchum MG.

Sci Rep. 2018 Feb 6;8(1):2505. doi: 10.1038/s41598-018-20536-5.


"Cyst-ained" research into Heterodera parasitism.

Juvale PS, Baum TJ.

PLoS Pathog. 2018 Feb 1;14(2):e1006791. doi: 10.1371/journal.ppat.1006791. eCollection 2018 Feb. Review. No abstract available.


Multi-level hp-finite cell method for embedded interface problems with application in biomechanics.

Elhaddad M, Zander N, Bog T, Kudela L, Kollmannsberger S, Kirschke J, Baum T, Ruess M, Rank E.

Int J Numer Method Biomed Eng. 2018 Apr;34(4):e2951. doi: 10.1002/cnm.2951. Epub 2018 Feb 13.


Bone mineral density measurements in vertebral specimens and phantoms using dual-layer spectral computed tomography.

Mei K, Schwaiger BJ, Kopp FK, Ehn S, Gersing AS, Kirschke JS, Muenzel D, Fingerle AA, Rummeny EJ, Pfeiffer F, Baum T, Noël PB.

Sci Rep. 2017 Dec 13;7(1):17519. doi: 10.1038/s41598-017-17855-4.


Suppression or Activation of Immune Responses by Predicted Secreted Proteins of the Soybean Rust Pathogen Phakopsora pachyrhizi.

Qi M, Grayczyk JP, Seitz JM, Lee Y, Link TI, Choi D, Pedley KF, Voegele RT, Baum TJ, Whitham SA.

Mol Plant Microbe Interact. 2018 Jan;31(1):163-174. doi: 10.1094/MPMI-07-17-0173-FI. Epub 2017 Nov 16.


Regional analysis of age-related local bone loss in the spine of a healthy population using 3D voxel-based modeling.

Valentinitsch A, Trebeschi S, Alarcón E, Baum T, Kaesmacher J, Zimmer C, Lorenz C, Kirschke JS.

Bone. 2017 Oct;103:233-240. doi: 10.1016/j.bone.2017.06.013. Epub 2017 Jul 14.


Is multidetector CT-based bone mineral density and quantitative bone microstructure assessment at the spine still feasible using ultra-low tube current and sparse sampling?

Mei K, Kopp FK, Bippus R, Köhler T, Schwaiger BJ, Gersing AS, Fehringer A, Sauter A, Münzel D, Pfeiffer F, Rummeny EJ, Kirschke JS, Noël PB, Baum T.

Eur Radiol. 2017 Dec;27(12):5261-5271. doi: 10.1007/s00330-017-4904-y. Epub 2017 Jun 21.


Quantitative MRI and spectroscopy of bone marrow.

Karampinos DC, Ruschke S, Dieckmeyer M, Diefenbach M, Franz D, Gersing AS, Krug R, Baum T.

J Magn Reson Imaging. 2018 Feb;47(2):332-353. doi: 10.1002/jmri.25769. Epub 2017 Jun 1. Review.


Cooperative Regulatory Functions of miR858 and MYB83 during Cyst Nematode Parasitism.

Piya S, Kihm C, Rice JH, Baum TJ, Hewezi T.

Plant Physiol. 2017 Jul;174(3):1897-1912. doi: 10.1104/pp.17.00273. Epub 2017 May 16.


Proton Density Fat-Fraction of Rotator Cuff Muscles Is Associated With Isometric Strength 10 Years After Rotator Cuff Repair: A Quantitative Magnetic Resonance Imaging Study of the Shoulder.

Karampinos DC, Holwein C, Buchmann S, Baum T, Ruschke S, Gersing AS, Sutter R, Imhoff AB, Rummeny EJ, Jungmann PM.

Am J Sports Med. 2017 Jul;45(9):1990-1999. doi: 10.1177/0363546517703086. Epub 2017 May 1.


Influence of Contrast Media on Bone Mineral Density (BMD) Measurements from Routine Contrast-Enhanced MDCT Datasets using a Phantom-less BMD Measurement Tool.

Toelly A, Bardach C, Weber M, Gong R, Lai Y, Wang P, Guo Y, Kirschke J, Baum T, Gruber M.

Rofo. 2017 Jun;189(6):537-543. doi: 10.1055/s-0043-102941. Epub 2017 Apr 26.


Effect of radiation dose reduction on texture measures of trabecular bone microstructure: an in vitro study.

Mookiah MRK, Baum T, Mei K, Kopp FK, Kaissis G, Foehr P, Noel PB, Kirschke JS, Subburaj K.

J Bone Miner Metab. 2018 May;36(3):323-335. doi: 10.1007/s00774-017-0836-5. Epub 2017 Apr 7.


Measurement of vertebral bone marrow proton density fat fraction in children using quantitative water-fat MRI.

Ruschke S, Pokorney A, Baum T, Eggers H, Miller JH, Hu HH, Karampinos DC.

MAGMA. 2017 Oct;30(5):449-460. doi: 10.1007/s10334-017-0617-0. Epub 2017 Apr 5.


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