Add statement of need and summary to notebook

shimming-toolbox · Feb 2, 2024 · 0f194ad · 0f194ad
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diff --git a/content/index.ipynb b/content/index.ipynb
@@ -57,10 +57,40 @@
     "<sup>8</sup> Functional Neuroimaging Unit, Centre de recherche de l'Institut universitaire de gériatrie de Montréal QC, Canada\n",
     "\n",
     "</p>\n",
-    "\n",
+    "</p>\n",
     "</p>\n"
    ]
   },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "<center><h2>Summary</h2></center>\n",
+    "\n",
+    "Data was collected from five participants between two 7T sites with a custom 8Tx/20Rx parallel transmission (pTx) coil. We explored two RF shimming approaches from an MRI vendor and four from an open-source toolbox, showcasing their ability to enhance transmit field and signal homogeneity along the cervical spinal cord.\n",
+    "\n",
+    "The results indicate significant improvements in B1+ efficiency and cerebrospinal fluid / spinal cord signal ratio across various RF shimming conditions compared to the vendor based methods.\n",
+    "\n",
+    "The study's findings highlight the potential of RF shimming to advance 7T MRI's clinical utility for central nervous system imaging by enabling more homogenous and efficient spinal cord imaging. Additionally, the research incorporates a reproducible Jupyter Notebook, enhancing the study's transparency and facilitating peer verification. By also making the data openly accessible on OpenNeuro, we ensure that the scientific community can further explore, validate, and build upon our findings, contributing to the collective advancement in high-resolution imaging techniques.\n",
+    "\n",
+    "```{figure} ../featured.png\n",
+    "---\n",
+    "width: 900px\n",
+    "name: fig1\n",
+    "align: center\n",
+    "---\n",
+    "```"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "<center><h2>Statement of Need</h2></center>\n",
+    "\n",
+    "Advancing the development of 7T MRI for spinal cord imaging is crucial for the enhanced diagnosis and monitoring of various neurodegenerative diseases {cite:p}`Kearney2015-py` and traumas {cite:p}`David2019-jy`. However, a significant challenge at this field strength is the transmit field inhomogeneity . Such inhomogeneity is particularly problematic for imaging the small, deep anatomical structures of{cite:p}`Ibrahim2001-xt,Collins2005-za,Roschmann1987-om,Yang2002-ui` the cervical spinal cord, as it can cause uneven signal intensity and elevate the local specific absorption ratio, compromising image quality. This multi-site study explores several radiofrequency (RF) shimming techniques in the cervical spinal cord at 7T.\n"
+   ]
+  },
   {
    "cell_type": "markdown",
    "metadata": {},

diff --git a/paper.bib b/paper.bib
@@ -158,58 +158,6 @@ @ARTICLE{Collins2005-za
   language = "en"
 }
 
-@MISC{Ibrahim2001-xt,
-  title    = "Dielectric resonances and {B1} field inhomogeneity in {UHF}
-              {MRI}: computational analysis and experimental findings",
-  author   = "Ibrahim, Tamer S and Lee, Robert and Abduljalil, Amir M and
-              Baertlein, Brian A and Robitaille, Pierre-Marie L",
-  year     =  2001,
-  note     = "Accessed: 2020-8-10"
-}
-
-@ARTICLE{Papp_undated-xl,
-  title  = "Universal pulses for the cervical spinal cord at 7T: a feasibility
-            study",
-  author = "Papp, Daniel and Boulant, Nicolas and Massire, Aurelien and
-            Mauconduit, Frank and Gras, Vincent and Cohen-Adad, Julien"
-}
-
-@ARTICLE{Kearney2015-py,
-  title    = "Spinal cord {MRI} in multiple sclerosis--diagnostic, prognostic
-              and clinical value",
-  author   = "Kearney, Hugh and Miller, David H and Ciccarelli, Olga",
-  abstract = "Multiple sclerosis (MS) is an inflammatory disorder of the CNS
-              that affects both the brain and the spinal cord. MRI studies in
-              MS focus more often on the brain than on the spinal cord, owing
-              to the technical challenges in imaging this smaller, mobile
-              structure. However, spinal cord abnormalities at disease onset
-              have important implications for diagnosis and prognosis.
-              Furthermore, later in the disease course, in progressive MS,
-              myelopathy becomes the primary characteristic of the clinical
-              presentation, and extensive spinal cord pathology--including
-              atrophy, diffuse abnormalities and numerous focal lesions--is
-              common. Recent spinal cord imaging studies have employed
-              increasingly sophisticated techniques to improve detection and
-              quantification of spinal cord lesions, and to elucidate their
-              relationship with physical disability. Quantitative MRI measures
-              of cord size and tissue integrity could be more sensitive to the
-              axonal loss and other pathological processes in the spinal cord
-              than is conventional MRI, putting quantitative MRI in a key role
-              to elucidate the association between disability and spinal cord
-              abnormalities seen in people with MS. In this Review, we
-              summarize the most recent MS spinal cord imaging studies and
-              discuss the new insights they have provided into the mechanisms
-              of neurological impairment. Finally, we suggest directions for
-              further and future research.",
-  journal  = "Nat. Rev. Neurol.",
-  volume   =  11,
-  number   =  6,
-  pages    = "327--338",
-  month    =  jun,
-  year     =  2015,
-  language = "en"
-}
-
 @ARTICLE{Roschmann1987-om,
   title    = "Radiofrequency penetration and absorption in the human body:
               limitations to high-field whole-body nuclear magnetic resonance