https://wiki-ms.microbe-ms.com/index.php?action=history&feed=atom&title=Export_XML_DataExport XML Data - Revision history2026-04-22T16:47:57ZRevision history for this page on the wikiMediaWiki 1.39.2https://wiki-ms.microbe-ms.com/index.php?title=Export_XML_Data&diff=1082&oldid=prevLaschp at 05:09, 8 March 20262026-03-08T05:09:05Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 07:09, 8 March 2026</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1">Line 1:</td>
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<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>MicrobeMS <del style="font-weight: bold; text-decoration: none;">facilitates the generation of </del>XML data files from MALDI-ToF mass spectra<del style="font-weight: bold; text-decoration: none;">, which </del>are necessary for <del style="font-weight: bold; text-decoration: none;">the utilization of </del>MicrobeNet.<br> &nbsp; <br></div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>MicrobeMS <ins style="font-weight: bold; text-decoration: none;">allows generating </ins>XML data files <ins style="font-weight: bold; text-decoration: none;">directly </ins>from MALDI-ToF mass spectra<ins style="font-weight: bold; text-decoration: none;">. XML files </ins>are necessary for <ins style="font-weight: bold; text-decoration: none;">online identification analysis with [https://microbenet.cdc.gov/ </ins>MicrobeNet<ins style="font-weight: bold; text-decoration: none;">]</ins>.<br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|600px|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|600px|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, Atlanta, USA). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing (<del style="font-weight: bold; text-decoration: none;">A </del>WGS analysis module is planned). Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Bogota, Colombia). The objective of MicrobeNet is to identify rare and unusual pathogens online, thereby saving clinical laboratories time and money by eliminating the need to send specimens to specialized laboratories for identification.<br> &nbsp; <br></div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, Atlanta, USA). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing (<ins style="font-weight: bold; text-decoration: none;">a </ins>WGS analysis module is planned). Users of the <ins style="font-weight: bold; text-decoration: none;">CDC's </ins>MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Bogota, Colombia). The objective of MicrobeNet is to identify rare and unusual pathogens online, thereby saving clinical laboratories time and money by eliminating the need to send specimens to specialized laboratories for identification.<br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>XML files are typically generated automatically during spectrum measurement using Bruker MBT software. To accomplish this, the MBT software must be equipped with a patch. Further details on this process can be found on the [https://microbenet.cdc.gov/Docs/MicrobeNet-HT-Out-SOP.pdf CDC website]. While it is theoretically possible to generate an XML file retrospectively using MBT's onboard tools from existing MALDI-ToF mass spectra, doing so is very labor-intensive (as of December 2025).</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>XML files are typically generated automatically during spectrum measurement using Bruker MBT software. To accomplish this, the MBT software must be equipped with a <ins style="font-weight: bold; text-decoration: none;">software </ins>patch. Further details on this process can be found on the [https://microbenet.cdc.gov/Docs/MicrobeNet-HT-Out-SOP.pdf CDC website]. While it is theoretically possible to generate an XML file retrospectively using MBT's onboard tools from existing MALDI-ToF mass spectra, doing so is very labor-intensive (as of December 2025).</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>An XML MALDI file does not contain complete spectrum data but rather a '''peak table''' aside from some basic metadata. The Bruker MBT software generates peak data using predefined parameters. This peak table data is then stored in the XML file. <br> &nbsp; <br></div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>An XML MALDI file does not contain complete spectrum data but rather a '''peak table''' aside from some basic metadata. The Bruker MBT software generates peak data using predefined parameters. This peak table data is then stored in the XML file. <br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>MicrobeMS' ''export XML data'' function enables direct conversion of MALDI spectrum data into the XML format. By this function MALDI-ToF mass spectrum data is automatically converted into a peak table format using predefined parameters for preprocessing and peak detection. The corresponding parameters can be viewed and adjusted in the file [[Description of MicrobeMS' main parameter file 'microbems.opt'| microbems.opt]]. Note that the MBT software and MicrobeMS use different methods of preprocessing and peak detection. The peak tables they generate may therefore differ slightly. However, systematic tests have demonstrated that the specific score values of the identification analyses vary only marginally.<br> &nbsp; <br></div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>MicrobeMS' ''export XML data'' function enables direct conversion of MALDI spectrum data into the XML format. By this function MALDI-ToF mass spectrum data is automatically converted into a peak table format using predefined parameters for preprocessing and peak detection. The corresponding parameters can be viewed and adjusted in the file [[Description of MicrobeMS' main parameter file 'microbems.opt'| microbems.opt]]. Note that the MBT software and MicrobeMS use different methods of preprocessing and peak detection. The peak tables they generate may therefore differ slightly. However, systematic tests have demonstrated that the specific score values of the identification analyses vary only marginally.<br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>To convert MALDI-ToF spectrum data <del style="font-weight: bold; text-decoration: none;">to </del>XML format, the data must first be loaded. Once the spectra have been selected (i.e., marked), the ''XML export (CDC MicrobeNet)'' option can be selected from the ''File'' pulldown menu. A dialog box will open where you can <del style="font-weight: bold; text-decoration: none;">enter </del>the name and path of the file to be saved. After confirming, the spectrum data will be processed, and the peak tables will be stored in an XML file. This file can then be used for online identification analysis in MicrobeNet.</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>To convert MALDI-ToF spectrum data <ins style="font-weight: bold; text-decoration: none;">into the </ins>XML format, the data must first be loaded. Once the spectra have been selected (i.e., marked), the ''XML export (CDC MicrobeNet)'' option can be selected from the ''File'' pulldown menu. A dialog box will <ins style="font-weight: bold; text-decoration: none;">then </ins>open where you can <ins style="font-weight: bold; text-decoration: none;">specify </ins>the name and path of the file to be saved. After confirming, the spectrum data will be processed, and the peak tables will be stored in an XML file. This file can then be used for online identification analysis in MicrobeNet.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet-Screenshot.png|1000px|left|thumb|alt=Screenshot of MicrobeNet MALDI online identification module | Screenshot of MicrobeNet MALDI online identification module. In this example, mass spectra from the RKI HPB ring trial were converted into the XML format and analyzed by the MicrobeNet solution of the CDC.]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet-Screenshot.png|1000px|left|thumb|alt=Screenshot of MicrobeNet MALDI online identification module | Screenshot of MicrobeNet MALDI online identification module. In this example, mass spectra from the RKI HPB ring trial were converted into the XML format and analyzed by the MicrobeNet solution of the CDC.]]</div></td></tr>
</table>Laschphttps://wiki-ms.microbe-ms.com/index.php?title=Export_XML_Data&diff=1080&oldid=prevLaschp at 21:45, 7 March 20262026-03-07T21:45:58Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 23:45, 7 March 2026</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l3">Line 3:</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|600px|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|600px|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, USA<del style="font-weight: bold; text-decoration: none;">, Atlanta</del>). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing (A WGS analysis module is planned). Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Bogota, Colombia). The objective of MicrobeNet is to identify rare and unusual pathogens online, thereby saving clinical laboratories time and money by eliminating the need to send specimens to specialized laboratories for identification.<br> &nbsp; <br></div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC<ins style="font-weight: bold; text-decoration: none;">, Atlanta</ins>, USA). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing (A WGS analysis module is planned). Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Bogota, Colombia). The objective of MicrobeNet is to identify rare and unusual pathogens online, thereby saving clinical laboratories time and money by eliminating the need to send specimens to specialized laboratories for identification.<br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>XML files are typically generated automatically during spectrum measurement using Bruker MBT software. To accomplish this, the MBT software must be equipped with a patch. Further details on this process can be found on the [https://microbenet.cdc.gov/Docs/MicrobeNet-HT-Out-SOP.pdf CDC website]. While it is theoretically possible to generate an XML file retrospectively using MBT's onboard tools from existing MALDI-ToF mass spectra, doing so is very labor-intensive (as of December 2025).</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>XML files are typically generated automatically during spectrum measurement using Bruker MBT software. To accomplish this, the MBT software must be equipped with a patch. Further details on this process can be found on the [https://microbenet.cdc.gov/Docs/MicrobeNet-HT-Out-SOP.pdf CDC website]. While it is theoretically possible to generate an XML file retrospectively using MBT's onboard tools from existing MALDI-ToF mass spectra, doing so is very labor-intensive (as of December 2025).</div></td></tr>
</table>Laschphttps://wiki-ms.microbe-ms.com/index.php?title=Export_XML_Data&diff=1078&oldid=prevLaschp at 21:43, 7 March 20262026-03-07T21:43:12Z<p></p>
<table style="background-color: #fff; color: #202122;" data-mw="interface">
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<tr class="diff-title" lang="en">
<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 23:43, 7 March 2026</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l7">Line 7:</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>XML files are typically generated automatically during spectrum measurement using Bruker MBT software. To accomplish this, the MBT software must be equipped with a patch. Further details on this process can be found on the [https://microbenet.cdc.gov/Docs/MicrobeNet-HT-Out-SOP.pdf CDC website]. While it is theoretically possible to generate an XML file retrospectively using MBT's onboard tools from existing MALDI-ToF mass spectra, doing so is very labor-intensive (as of December 2025).</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>XML files are typically generated automatically during spectrum measurement using Bruker MBT software. To accomplish this, the MBT software must be equipped with a patch. Further details on this process can be found on the [https://microbenet.cdc.gov/Docs/MicrobeNet-HT-Out-SOP.pdf CDC website]. While it is theoretically possible to generate an XML file retrospectively using MBT's onboard tools from existing MALDI-ToF mass spectra, doing so is very labor-intensive (as of December 2025).</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>An XML MALDI file does not contain complete spectrum data but rather a '''peak table''' aside from some basic metadata. The Bruker MBT software generates peak data using predefined parameters. This peak table data is then stored in the XML file. <br> &nbsp; <br></div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>An XML MALDI file does not contain complete spectrum data but rather a '''peak table''' aside from some basic metadata. The Bruker MBT software generates peak data using predefined parameters. This peak table data is then stored in the XML file. <br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>MicrobeMS' ''export XML data'' function enables direct conversion of MALDI spectrum data into the XML format. By this function MALDI-ToF mass spectrum data is automatically converted into a peak table format using predefined parameters for preprocessing and peak detection. The corresponding parameters can be viewed and adjusted in the file [microbems.opt] . Note that the MBT software and MicrobeMS use different methods of preprocessing and peak detection. The peak tables they generate may therefore differ slightly. However, systematic tests have demonstrated that the specific score values of the identification analyses vary only marginally.<br> &nbsp; <br></div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>MicrobeMS' ''export XML data'' function enables direct conversion of MALDI spectrum data into the XML format. By this function MALDI-ToF mass spectrum data is automatically converted into a peak table format using predefined parameters for preprocessing and peak detection. The corresponding parameters can be viewed and adjusted in the file [<ins style="font-weight: bold; text-decoration: none;">[Description of MicrobeMS' main parameter file '</ins>microbems.opt<ins style="font-weight: bold; text-decoration: none;">'| microbems.opt]</ins>]. Note that the MBT software and MicrobeMS use different methods of preprocessing and peak detection. The peak tables they generate may therefore differ slightly. However, systematic tests have demonstrated that the specific score values of the identification analyses vary only marginally.<br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>To convert MALDI-ToF spectrum data to XML format, the data must first be loaded. Once the spectra have been selected (i.e., marked), the ''XML export (CDC MicrobeNet)'' option can be selected from the ''File'' pulldown menu. A dialog box will open where you can enter the name and path of the file to be saved. After confirming, the spectrum data will be processed, and the peak tables will be stored in an XML file. This file can then be used for online identification analysis in MicrobeNet.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>To convert MALDI-ToF spectrum data to XML format, the data must first be loaded. Once the spectra have been selected (i.e., marked), the ''XML export (CDC MicrobeNet)'' option can be selected from the ''File'' pulldown menu. A dialog box will open where you can enter the name and path of the file to be saved. After confirming, the spectrum data will be processed, and the peak tables will be stored in an XML file. This file can then be used for online identification analysis in MicrobeNet.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet-Screenshot.png|1000px|left|thumb|alt=Screenshot of MicrobeNet MALDI online identification module | Screenshot of MicrobeNet MALDI online identification module. In this example, mass spectra from the RKI HPB ring trial were converted into the XML format and analyzed by the MicrobeNet solution of the CDC.]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet-Screenshot.png|1000px|left|thumb|alt=Screenshot of MicrobeNet MALDI online identification module | Screenshot of MicrobeNet MALDI online identification module. In this example, mass spectra from the RKI HPB ring trial were converted into the XML format and analyzed by the MicrobeNet solution of the CDC.]]</div></td></tr>
</table>Laschphttps://wiki-ms.microbe-ms.com/index.php?title=Export_XML_Data&diff=1077&oldid=prevLaschp at 21:41, 7 March 20262026-03-07T21:41:48Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 23:41, 7 March 2026</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l3">Line 3:</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|600px|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|600px|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, USA, Atlanta). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing (A WGS analysis module is planned). Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Colombia). The objective of MicrobeNet is to identify rare and unusual pathogens online, thereby saving clinical laboratories time and money by eliminating the need to send specimens to specialized laboratories for identification.<br> &nbsp; <br></div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, USA, Atlanta). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing (A WGS analysis module is planned). Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (<ins style="font-weight: bold; text-decoration: none;">Bogota, </ins>Colombia). The objective of MicrobeNet is to identify rare and unusual pathogens online, thereby saving clinical laboratories time and money by eliminating the need to send specimens to specialized laboratories for identification.<br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>XML files are typically generated automatically during spectrum measurement using Bruker MBT software. To accomplish this, the MBT software must be equipped with a patch. Further details on this process can be found on the [https://microbenet.cdc.gov/Docs/MicrobeNet-HT-Out-SOP.pdf CDC website]. While it is theoretically possible to generate an XML file retrospectively using MBT's onboard tools from existing MALDI-ToF mass spectra, doing so is very labor-intensive (as of December 2025).</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>XML files are typically generated automatically during spectrum measurement using Bruker MBT software. To accomplish this, the MBT software must be equipped with a patch. Further details on this process can be found on the [https://microbenet.cdc.gov/Docs/MicrobeNet-HT-Out-SOP.pdf CDC website]. While it is theoretically possible to generate an XML file retrospectively using MBT's onboard tools from existing MALDI-ToF mass spectra, doing so is very labor-intensive (as of December 2025).</div></td></tr>
</table>Laschphttps://wiki-ms.microbe-ms.com/index.php?title=Export_XML_Data&diff=1076&oldid=prevLaschp at 21:38, 7 March 20262026-03-07T21:38:22Z<p></p>
<table style="background-color: #fff; color: #202122;" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 23:38, 7 March 2026</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l11">Line 11:</td>
<td colspan="2" class="diff-lineno">Line 11:</td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>To convert MALDI-ToF spectrum data to XML format, the data must first be loaded. Once the spectra have been selected (i.e., marked), the ''XML export (CDC MicrobeNet)'' option can be selected from the ''File'' pulldown menu. A dialog box will open where you can enter the name and path of the file to be saved. After confirming, the spectrum data will be processed, and the peak tables will be stored in an XML file. This file can then be used for online identification analysis in MicrobeNet.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>To convert MALDI-ToF spectrum data to XML format, the data must first be loaded. Once the spectra have been selected (i.e., marked), the ''XML export (CDC MicrobeNet)'' option can be selected from the ''File'' pulldown menu. A dialog box will open where you can enter the name and path of the file to be saved. After confirming, the spectrum data will be processed, and the peak tables will be stored in an XML file. This file can then be used for online identification analysis in MicrobeNet.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet-Screenshot.png|1000px|left|thumb|alt=Screenshot of MicrobeNet MALDI online identification module | Screenshot of MicrobeNet MALDI online identification module. In this example mass spectra from the RKI HPB ring trial were converted into the XML format and analyzed by the MicrobeNet solution of the CDC.]]</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet-Screenshot.png|1000px|left|thumb|alt=Screenshot of MicrobeNet MALDI online identification module | Screenshot of MicrobeNet MALDI online identification module. In this example<ins style="font-weight: bold; text-decoration: none;">, </ins>mass spectra from the RKI HPB ring trial were converted into the XML format and analyzed by the MicrobeNet solution of the CDC.]]</div></td></tr>
</table>Laschphttps://wiki-ms.microbe-ms.com/index.php?title=Export_XML_Data&diff=1075&oldid=prevLaschp at 21:37, 7 March 20262026-03-07T21:37:57Z<p></p>
<table style="background-color: #fff; color: #202122;" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 23:37, 7 March 2026</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l11">Line 11:</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>To convert MALDI-ToF spectrum data to XML format, the data must first be loaded. Once the spectra have been selected (i.e., marked), the ''XML export (CDC MicrobeNet)'' option can be selected from the ''File'' pulldown menu. A dialog box will open where you can enter the name and path of the file to be saved. After confirming, the spectrum data will be processed, and the peak tables will be stored in an XML file. This file can then be used for online identification analysis in MicrobeNet.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>To convert MALDI-ToF spectrum data to XML format, the data must first be loaded. Once the spectra have been selected (i.e., marked), the ''XML export (CDC MicrobeNet)'' option can be selected from the ''File'' pulldown menu. A dialog box will open where you can enter the name and path of the file to be saved. After confirming, the spectrum data will be processed, and the peak tables will be stored in an XML file. This file can then be used for online identification analysis in MicrobeNet.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet-Screenshot.png|1000px|left|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet-Screenshot.png|1000px|left|thumb|alt=Screenshot of MicrobeNet MALDI online identification module <ins style="font-weight: bold; text-decoration: none;">| Screenshot of MicrobeNet MALDI online identification module. In this example mass spectra from the RKI HPB ring trial were converted into the XML format and analyzed by the MicrobeNet solution of the CDC.</ins>]]</div></td></tr>
</table>Laschphttps://wiki-ms.microbe-ms.com/index.php?title=Export_XML_Data&diff=1073&oldid=prevLaschp at 21:31, 7 March 20262026-03-07T21:31:37Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 23:31, 7 March 2026</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>To convert MALDI-ToF spectrum data to XML format, the data must first be loaded. Once the spectra have been selected (i.e., marked), the ''XML export (CDC MicrobeNet)'' option can be selected from the ''File'' pulldown menu. A dialog box will open where you can enter the name and path of the file to be saved. After confirming, the spectrum data will be processed, and the peak tables will be stored in an XML file. This file can then be used for online identification analysis in MicrobeNet.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>To convert MALDI-ToF spectrum data to XML format, the data must first be loaded. Once the spectra have been selected (i.e., marked), the ''XML export (CDC MicrobeNet)'' option can be selected from the ''File'' pulldown menu. A dialog box will open where you can enter the name and path of the file to be saved. After confirming, the spectrum data will be processed, and the peak tables will be stored in an XML file. This file can then be used for online identification analysis in MicrobeNet.</div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">[[File:MicrobeNet-Screenshot.png|1000px|left|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</ins></div></td></tr>
</table>Laschphttps://wiki-ms.microbe-ms.com/index.php?title=Export_XML_Data&diff=1072&oldid=prevLaschp at 21:29, 7 March 20262026-03-07T21:29:33Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 23:29, 7 March 2026</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|600px|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|600px|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, USA, Atlanta). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing (A WGS analysis module is planned). Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Colombia). <del style="font-weight: bold; text-decoration: none;">This process facilitates the identification of bacterial or fungal species.</del></div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, USA, Atlanta). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing (A WGS analysis module is planned). Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Colombia). The objective of MicrobeNet is to identify rare and unusual pathogens online, thereby saving clinical laboratories time and money by eliminating the need to send specimens to specialized laboratories for identification.<br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>The objective of MicrobeNet is to identify rare and unusual pathogens online, thereby saving clinical laboratories time and money by eliminating the need to send specimens to specialized laboratories for identification.<br> &nbsp; <br></div></td><td colspan="2" class="diff-side-added"></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>XML files are typically generated automatically during spectrum measurement using Bruker MBT software. To accomplish this, the MBT software must be equipped with a patch. Further details on this process can be found on the [https://microbenet.cdc.gov/Docs/MicrobeNet-HT-Out-SOP.pdf CDC website]. While it is theoretically possible to generate an XML file retrospectively using MBT's onboard tools from existing MALDI-ToF mass spectra, doing so is very labor-intensive (as of December 2025).</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>XML files are typically generated automatically during spectrum measurement using Bruker MBT software. To accomplish this, the MBT software must be equipped with a patch. Further details on this process can be found on the [https://microbenet.cdc.gov/Docs/MicrobeNet-HT-Out-SOP.pdf CDC website]. While it is theoretically possible to generate an XML file retrospectively using MBT's onboard tools from existing MALDI-ToF mass spectra, doing so is very labor-intensive (as of December 2025).</div></td></tr>
</table>Laschphttps://wiki-ms.microbe-ms.com/index.php?title=Export_XML_Data&diff=1071&oldid=prevLaschp at 21:28, 7 March 20262026-03-07T21:28:47Z<p></p>
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 23:28, 7 March 2026</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|600px|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|600px|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, USA, Atlanta). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing. Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Colombia). This process facilitates the identification of bacterial or fungal species.</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, USA, Atlanta). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing <ins style="font-weight: bold; text-decoration: none;">(A WGS analysis module is planned)</ins>. Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Colombia). This process facilitates the identification of bacterial or fungal species.</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The objective of MicrobeNet is to identify rare and unusual pathogens online, thereby saving clinical laboratories time and money by eliminating the need to send specimens to specialized laboratories for identification.<br> &nbsp; <br></div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>The objective of MicrobeNet is to identify rare and unusual pathogens online, thereby saving clinical laboratories time and money by eliminating the need to send specimens to specialized laboratories for identification.<br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
</table>Laschphttps://wiki-ms.microbe-ms.com/index.php?title=Export_XML_Data&diff=1070&oldid=prevLaschp at 21:27, 7 March 20262026-03-07T21:27:35Z<p></p>
<table style="background-color: #fff; color: #202122;" data-mw="interface">
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<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td>
<td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 23:27, 7 March 2026</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1">Line 1:</td>
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<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>MicrobeMS facilitates the generation of XML data files from MALDI-ToF mass spectra, which are necessary for the utilization of MicrobeNet.<br> &nbsp; <br></div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>MicrobeMS facilitates the generation of XML data files from MALDI-ToF mass spectra, which are necessary for the utilization of MicrobeNet.<br> &nbsp; <br></div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|<del style="font-weight: bold; text-decoration: none;">400px</del>|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[[File:MicrobeNet.png|<ins style="font-weight: bold; text-decoration: none;">600px</ins>|right|thumb|alt=Screenshot of MicrobeNet MALDI online identification module]]</div></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr>
<tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, USA, Atlanta). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing. Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Colombia). This process facilitates the identification of bacterial or fungal species.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>[https://microbenet.cdc.gov/ MicrobeNet] is an free online resource maintained by the Centers for Disease Control and Prevention (CDC, USA, Atlanta). It is designed to assist microbiologists with identifying bacterial and fungal pathogens by MALDI-ToF MS and 16S/ITS gene sequencing. Users of the MicrobeNet MALDI module have the capability of submitting MALDI-ToF data for querying against Bruker Daltonics' MALDI Biotyper (MBT) pathogen database, databases maintained by the CDC (bacteria, unidentified bacteria, tick database) and databases of collaborating institutions like ReNaEM (Buenos Aires, Argentina), National Microbiology Lab (Winnipeg, Canada), Robert Koch-Institute (Berlin, Germany) and the Instituto Nacional de Salud (Colombia). This process facilitates the identification of bacterial or fungal species.</div></td></tr>
</table>Laschp