Summary of Study ST001020

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR000683. The data can be accessed directly via it's Project DOI: 10.21228/M8D11B This work is supported by NIH grant, U2C- DK119886.


This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST001020
Study TitleCharacterization of metabolomics profile changes during development of post-traumatic epilepsy in Rat Plasma (part-I)
Study SummaryCharacterize the metabolomics profile changes during progression of the transition from traumatic brain injury (TBI) to post-traumatic epilepsy (PTE). To do so, three experiments will be performed. PTE animal model will be developed using ferrous chloride injections. Metabolomics profile changes will be obtained before TBI, after TBI, and after PTE development These temporal changes in metabolomics profile during the course of PTE development will be collected. We will also collect cerebrospinal fluid (CSF) at each time point. In addition, we will collect the brain tissue from the center of injury, around the injury, and from the non-injured area for mass spectrometry. In this study, the rat plasma at each time point is analyzed.
Mayo Clinic
Last NameSu-youne
First NameChang
Address200 1st Street SW Rochester, MN 55905, USA
Submit Date2018-07-17
Analysis Type DetailLC-MS
Release Date2020-07-15
Release Version1
Chang Su-youne Chang Su-youne application/zip

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Project ID:PR000683
Project DOI:doi: 10.21228/M8D11B
Project Title:Mayo Pilot and Feasibility: Characterization of metabolomics profile changes during development of post-traumatic epilepsy
Project Summary:According to the report from the Centers for Disease Control and Prevention in 2014, traumatic brain injury (TBI) accounts for 30% of all injury-related deaths in the U.S. Developing epilepsy after severe head injury is as high as 40%-50% in some settings. Importantly, many TBI victims develop epilepsy months or years following the initial injury. However, it has not been fully identified how to predict who will develop epilepsy and/or the underlying mechanism of post traumatic epilesy (PTE) development. The main goal of this proposal is to identify the metabolomics biomarker of TBI-induced epilepsy and to investigate the underlying mechanism of the transition from TBI to PTE. To do so, we will develop PTE using two TBI animal models: ferrous chloride injection model and cortical undercut model. Once the brain damage is made, electroencephalogram (EEG) and video monitoring will be performed to determine the onset point of epilepsy. Then, metabolomics profile changes will be analyzed and compared before and after PTE development.
Institute:Mayo Clinic
Last Name:Su-youne
First Name:Chang
Address:200 1st Street SW Rochester, MN 55905, USA


Subject ID:SU001059
Subject Type:Mammal
Subject Species:Rattus norvegicus
Taxonomy ID:10116


Subject type: Mammal; Subject species: Rattus norvegicus (Factor headings shown in green)

mb_sample_id local_sample_id groups time
SA064000pC18-20jul17-007C C2
SA064001nC18-22jul17-007C C2
SA064002nhilic-28jul17-007C C2
SA064003philic-17jul17-007C C2
SA064004pC18-20jul17-014C C3
SA064005nC18-22jul17-014C C3
SA064006nhilic-28jul17-014C C3
SA064007philic-17jul17-014C C3
SA064008nC18-22jul17-021C C4
SA064009philic-17jul17-021C C4
SA064010nhilic-28jul17-021C C4
SA064011pC18-20jul17-021C C4
SA064012nhilic-28jul17-011F 2W
SA064013philic-17jul17-025F 2W
SA064014pC18-20jul17-018F 2W
SA064015pC18-20jul17-004F 2W
SA064016nC18-22jul17-011F 2W
SA064017pC18-20jul17-011F 2W
SA064018pC18-20jul17-025F 2W
SA064019nhilic-28jul17-004F 2W
SA064020nC18-22jul17-025F 2W
SA064021nhilic-28jul17-018F 2W
SA064022nC18-22jul17-018F 2W
SA064023philic-17jul17-011F 2W
SA064024nhilic-28jul17-025F 2W
SA064025philic-17jul17-004F 2W
SA064026nC18-22jul17-004F 2W
SA064027philic-17jul17-018F 2W
SA064028philic-17jul17-006F M1(4W)
SA064029nC18-22jul17-013F M1(4W)
SA064030philic-17jul17-013F M1(4W)
SA064031pC18-20jul17-020F M1(4W)
SA064032nhilic-28jul17-006F M1(4W)
SA064033nhilic-28jul17-027F M1(4W)
SA064034philic-17jul17-020F M1(4W)
SA064035nhilic-28jul17-020F M1(4W)
SA064036nC18-22jul17-006F M1(4W)
SA064037nhilic-28jul17-013F M1(4W)
SA064038pC18-20jul17-027F M1(4W)
SA064039philic-17jul17-027F M1(4W)
SA064040nC18-22jul17-020F M1(4W)
SA064041nC18-22jul17-027F M1(4W)
SA064042pC18-20jul17-013F M1(4W)
SA064043pC18-20jul17-006F M1(4W)
SA064044pC18-20jul17-002F Pre
SA064045nC18-22jul17-002F Pre
SA064046philic-17jul17-016F Pre
SA064047pC18-20jul17-016F Pre
SA064048philic-17jul17-023F Pre
SA064049nhilic-28jul17-016F Pre
SA064050philic-17jul17-002F Pre
SA064051nhilic-28jul17-023F Pre
SA064052nC18-22jul17-023F Pre
SA064053philic-17jul17-009F Pre
SA064054nhilic-28jul17-009F Pre
SA064055pC18-20jul17-009F Pre
SA064056nC18-22jul17-016F Pre
SA064057nC18-22jul17-009F Pre
SA064058nhilic-28jul17-002F Pre
SA064059pC18-20jul17-023F Pre
SA064060nC18-22jul17-024S 2W
SA064061nhilic-28jul17-017S 2W
SA064062pC18-20jul17-017S 2W
SA064063philic-17jul17-017S 2W
SA064064nC18-22jul17-017S 2W
SA064065nhilic-28jul17-024S 2W
SA064066philic-17jul17-003S 2W
SA064067nC18-22jul17-010S 2W
SA064068nhilic-28jul17-010S 2W
SA064069philic-17jul17-010S 2W
SA064070pC18-20jul17-003S 2W
SA064071philic-17jul17-024S 2W
SA064072nhilic-28jul17-003S 2W
SA064073pC18-20jul17-010S 2W
SA064074nC18-22jul17-003S 2W
SA064075pC18-20jul17-024S 2W
SA064076philic-17jul17-005S M1(4W)
SA064077nC18-22jul17-019S M1(4W)
SA064078philic-17jul17-012S M1(4W)
SA064079nC18-22jul17-005S M1(4W)
SA064080nhilic-28jul17-005S M1(4W)
SA064081pC18-20jul17-005S M1(4W)
SA064082pC18-20jul17-026S M1(4W)
SA064083pC18-20jul17-012S M1(4W)
SA064084pC18-20jul17-019S M1(4W)
SA064085nhilic-28jul17-026S M1(4W)
SA064086nhilic-28jul17-012S M1(4W)
SA064087nC18-22jul17-012S M1(4W)
SA064088philic-17jul17-019S M1(4W)
SA064089nhilic-28jul17-019S M1(4W)
SA064090nC18-22jul17-026S M1(4W)
SA064091philic-17jul17-026S M1(4W)
SA064092philic-17jul17-022S Pre
SA064093philic-17jul17-015S Pre
SA064094nhilic-28jul17-001S Pre
SA064095pC18-20jul17-001S Pre
SA064096pC18-20jul17-008S Pre
SA064097nC18-22jul17-022S Pre
SA064098nC18-22jul17-015S Pre
SA064099nC18-22jul17-008S Pre
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Collection ID:CO001053
Collection Summary:Rats will either be controls, injected with saline, or injected with ferrous chloride to influence PTE. Study Groupings: C=control, S=Saline treated, F=ferrous chloride treated Time: pre=day0, 2W=2 weeks, M1(4W)=1 month Experimental Flow Day0: baseline pre TBI. Blood and CSF collected Day1: Surgery for TBI. Injections of Ferrous Cloride or Saline Day2: CSF collected Weeks1-3: montoring to determine PTE starting point. Blood and CSF collected 1 Month: montoring of PTE. Blood and CSF collected 2 Month: Animal is euthanized and blood, CSF, and tissue harvested
Sample Type:Blood (plasma)


Treatment ID:TR001073
Treatment Summary:Rats will either be controls, injected with saline, or injected with ferrous chloride to influence PTE. Trauma-Induced Epilepsy Model: Ferrous chloride injection model: Ferrous chloride solution (5 μl of 100 mM with saline) will be injected at a rate of 0.5 μl/min through a Hamilton micro-syringe controlled by a micro-pump (UMP3, WPI, FL). Once the ferrous chloride solution injection is completed, the syringe will remain in position for 5 minutes, and then it will be removed slowly. The burr holes will be closed with light-curing dental cement. The dose of ferrous chloride injection was determined from prior published reports from mouse, rat, and cat. They all used 100 mM ferrous chloride aqueous solution and volumes were various: 1 μl for mouse,14 5 μl for rat (200-300 g),15 and 10 μl for cat (2-4 Kg).15 Video monitoring: The use of 24 x 7 video monitoring and review means that we do not have to rely on the rats having seizures during daily rounding or at some other time when a human happens to be present in the home cage. Normally, the video will be watched in time lapse, fast-forward mode to scan for potential seizures. The reviewer can then stop the video, rewind and watch the behavioral episode in real-time or slow motion to determine whether a seizure actually occurred. Behavioral seizures will be identified by any combination or sequence of the following: loss of postural control (opisthotonus), tonic flexion or extension of limbs or head/neck, and clonic movements of limbs or head/neck. Often, behavioral seizures in rats may be accompanied by drooling, urination and facial twitches, although these may not always be observable on video. In addition, seizures will likely be followed by a postictal phase, which may include a period of running, jumping and general agitation. Video monitoring cannot detect subclinical or electrographic seizures (i.e., seizures without a behavioral component). Video will be reviewed in this way for each rat in order to establish that a cortical injured rat does indeed have epilepsy, to establish the “typical seizure” pattern in each rat, and to help establish a seizure frequency baseline, although it is understood that video monitoring alone might occasionally miss a seizure. EEG monitoring: To prevent imaging distortion and ferromagnetic interference, graphite carbon electrodes will be fabricated and/or purchased. A total of five electrodes will be implanted for EEG monitoring on the skull. EEG will be monitored with the Open EPhys System.18 While EEG recording, EEG electrodes will be connected to wires attached to the ceiling of a cage. In trauma-induced epilepsy rats, spontaneous neural activity will be recorded using a wide bandwidth (0-9 kHz) recording system. Post-analysis will be used to identify epilepsy signals.

Sample Preparation:

Sampleprep ID:SP001066
Sampleprep Summary:large scale profiling using rat plasma

Combined analysis:

Analysis ID AN001668 AN001669 AN001670 AN001671
Analysis type MS MS MS MS
Chromatography type HILIC HILIC Reversed phase Reversed phase
Chromatography system Agilent 1290 Infinity Agilent 1290 Infinity Agilent 1290 Infinity Agilent 1290 Infinity
Column Waters Acquity BEH Amide (150 x 2.1mm,1.7um) Waters Acquity BEH Amide (150 x 2.1mm,1.7um) Waters Acquity HSS C18 (150 x 2.1mm,1.8um) Waters Acquity HSS C18 (150 x 2.1mm,1.8um)
MS instrument type QTOF QTOF QTOF QTOF
MS instrument name Agilent 6550 QTOF Agilent 6550 QTOF Agilent 6550 QTOF Agilent 6550 QTOF
Units intensity intensity intensity intensity


Chromatography ID:CH001175
Instrument Name:Agilent 1290 Infinity
Column Name:Waters Acquity BEH Amide (150 x 2.1mm,1.7um)
Chromatography Type:HILIC
Chromatography ID:CH001176
Instrument Name:Agilent 1290 Infinity
Column Name:Waters Acquity HSS C18 (150 x 2.1mm,1.8um)
Chromatography Type:Reversed phase


MS ID:MS001543
Analysis ID:AN001668
Instrument Name:Agilent 6550 QTOF
Instrument Type:QTOF
MS ID:MS001544
Analysis ID:AN001669
Instrument Name:Agilent 6550 QTOF
Instrument Type:QTOF
MS ID:MS001545
Analysis ID:AN001670
Instrument Name:Agilent 6550 QTOF
Instrument Type:QTOF
MS ID:MS001546
Analysis ID:AN001671
Instrument Name:Agilent 6550 QTOF
Instrument Type:QTOF