#METABOLOMICS WORKBENCH hormel101_20180717_161349_mwtab.txt DATATRACK_ID:1457 STUDY_ID:ST001020 ANALYSIS_ID:AN001671 PROJECT_ID:PR000683
VERSION             	1
CREATED_ON             	July 18, 2018, 10:03 am
#PROJECT
PR:PROJECT_TITLE                 	Mayo Pilot and Feasibility: Characterization of metabolomics profile changes
PR:PROJECT_TITLE                 	during development of post-traumatic epilepsy
PR:PROJECT_SUMMARY               	According to the report from the Centers for Disease Control and Prevention in
PR:PROJECT_SUMMARY               	2014, traumatic brain injury (TBI) accounts for 30% of all injury-related deaths
PR:PROJECT_SUMMARY               	in the U.S. Developing epilepsy after severe head injury is as high as 40%-50%
PR:PROJECT_SUMMARY               	in some settings. Importantly, many TBI victims develop epilepsy months or years
PR:PROJECT_SUMMARY               	following the initial injury. However, it has not been fully identified how to
PR:PROJECT_SUMMARY               	predict who will develop epilepsy and/or the underlying mechanism of post
PR:PROJECT_SUMMARY               	traumatic epilesy (PTE) development. The main goal of this proposal is to
PR:PROJECT_SUMMARY               	identify the metabolomics biomarker of TBI-induced epilepsy and to investigate
PR:PROJECT_SUMMARY               	the underlying mechanism of the transition from TBI to PTE. To do so, we will
PR:PROJECT_SUMMARY               	develop PTE using two TBI animal models: ferrous chloride injection model and
PR:PROJECT_SUMMARY               	cortical undercut model. Once the brain damage is made, electroencephalogram
PR:PROJECT_SUMMARY               	(EEG) and video monitoring will be performed to determine the onset point of
PR:PROJECT_SUMMARY               	epilepsy. Then, metabolomics profile changes will be analyzed and compared
PR:PROJECT_SUMMARY               	before and after PTE development.
PR:INSTITUTE                     	Mayo Clinic
PR:LAST_NAME                     	Su-youne
PR:FIRST_NAME                    	Chang
PR:ADDRESS                       	200 1st Street SW Rochester, MN 55905, USA
PR:EMAIL                         	Chang.SuYoune@mayo.edu
PR:PHONE                         	1-507-293-0511
#STUDY
ST:STUDY_TITLE                   	Characterization of metabolomics profile changes during development of
ST:STUDY_TITLE                   	post-traumatic epilepsy in Rat Plasma (part-I)
ST:STUDY_SUMMARY                 	Characterize the metabolomics profile changes during progression of the
ST:STUDY_SUMMARY                 	transition from traumatic brain injury (TBI) to post-traumatic epilepsy (PTE).
ST:STUDY_SUMMARY                 	To do so, three experiments will be performed. PTE animal model will be
ST:STUDY_SUMMARY                 	developed using ferrous chloride injections. Metabolomics profile changes will
ST:STUDY_SUMMARY                 	be obtained before TBI, after TBI, and after PTE development These temporal
ST:STUDY_SUMMARY                 	changes in metabolomics profile during the course of PTE development will be
ST:STUDY_SUMMARY                 	collected. We will also collect cerebrospinal fluid (CSF) at each time point. In
ST:STUDY_SUMMARY                 	addition, we will collect the brain tissue from the center of injury, around the
ST:STUDY_SUMMARY                 	injury, and from the non-injured area for mass spectrometry. In this study, the
ST:STUDY_SUMMARY                 	rat plasma at each time point is analyzed.
ST:INSTITUTE                     	Mayo Clinic
ST:LAST_NAME                     	Su-youne
ST:FIRST_NAME                    	Chang
ST:ADDRESS                       	200 1st Street SW Rochester, MN 55905, USA
ST:EMAIL                         	Chang.SuYoune@mayo.edu
ST:PHONE                         	1-507-293-0511
#SUBJECT
SU:SUBJECT_TYPE                  	Mammal
SU:SUBJECT_SPECIES               	Rattus norvegicus
SU:TAXONOMY_ID                   	10116
#SUBJECT_SAMPLE_FACTORS:         	SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Additional sample data
SUBJECT_SAMPLE_FACTORS           	ms6756-1	nC18-22jul17-001	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-2	nC18-22jul17-002	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-3	nC18-22jul17-003	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-4	nC18-22jul17-004	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-5	nC18-22jul17-005	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-6	nC18-22jul17-006	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-7	nC18-22jul17-007	groups:C | time:C2	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-8	nC18-22jul17-008	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-9	nC18-22jul17-009	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-10	nC18-22jul17-010	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-11	nC18-22jul17-011	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-12	nC18-22jul17-012	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-13	nC18-22jul17-013	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-14	nC18-22jul17-014	groups:C | time:C3	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-15	nC18-22jul17-015	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-16	nC18-22jul17-016	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-17	nC18-22jul17-017	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-18	nC18-22jul17-018	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-19	nC18-22jul17-019	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-20	nC18-22jul17-020	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-21	nC18-22jul17-021	groups:C | time:C4	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-22	nC18-22jul17-022	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-23	nC18-22jul17-023	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-24	nC18-22jul17-024	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-25	nC18-22jul17-025	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-26	nC18-22jul17-026	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-27	nC18-22jul17-027	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=NC18
SUBJECT_SAMPLE_FACTORS           	ms6756-1	pC18-20jul17-001	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-2	pC18-20jul17-002	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-3	pC18-20jul17-003	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-4	pC18-20jul17-004	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-5	pC18-20jul17-005	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-6	pC18-20jul17-006	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-7	pC18-20jul17-007	groups:C | time:C2	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-8	pC18-20jul17-008	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-9	pC18-20jul17-009	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-10	pC18-20jul17-010	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-11	pC18-20jul17-011	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-12	pC18-20jul17-012	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-13	pC18-20jul17-013	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-14	pC18-20jul17-014	groups:C | time:C3	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-15	pC18-20jul17-015	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-16	pC18-20jul17-016	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-17	pC18-20jul17-017	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-18	pC18-20jul17-018	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-19	pC18-20jul17-019	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-20	pC18-20jul17-020	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-21	pC18-20jul17-021	groups:C | time:C4	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-22	pC18-20jul17-022	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-23	pC18-20jul17-023	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-24	pC18-20jul17-024	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-25	pC18-20jul17-025	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-26	pC18-20jul17-026	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-27	pC18-20jul17-027	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=PC18
SUBJECT_SAMPLE_FACTORS           	ms6756-1	nhilic-28jul17-001	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-2	nhilic-28jul17-002	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-3	nhilic-28jul17-003	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-4	nhilic-28jul17-004	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-5	nhilic-28jul17-005	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-6	nhilic-28jul17-006	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-7	nhilic-28jul17-007	groups:C | time:C2	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-8	nhilic-28jul17-008	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-9	nhilic-28jul17-009	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-10	nhilic-28jul17-010	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-11	nhilic-28jul17-011	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-12	nhilic-28jul17-012	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-13	nhilic-28jul17-013	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-14	nhilic-28jul17-014	groups:C | time:C3	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-15	nhilic-28jul17-015	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-16	nhilic-28jul17-016	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-17	nhilic-28jul17-017	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-18	nhilic-28jul17-018	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-19	nhilic-28jul17-019	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-20	nhilic-28jul17-020	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-21	nhilic-28jul17-021	groups:C | time:C4	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-22	nhilic-28jul17-022	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-23	nhilic-28jul17-023	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-24	nhilic-28jul17-024	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-25	nhilic-28jul17-025	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-26	nhilic-28jul17-026	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-27	nhilic-28jul17-027	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=nhilic
SUBJECT_SAMPLE_FACTORS           	ms6756-1	philic-17jul17-001	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-2	philic-17jul17-002	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-3	philic-17jul17-003	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-4	philic-17jul17-004	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-5	philic-17jul17-005	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-6	philic-17jul17-006	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-7	philic-17jul17-007	groups:C | time:C2	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-8	philic-17jul17-008	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-9	philic-17jul17-009	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-10	philic-17jul17-010	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-11	philic-17jul17-011	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-12	philic-17jul17-012	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-13	philic-17jul17-013	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-14	philic-17jul17-014	groups:C | time:C3	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-15	philic-17jul17-015	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-16	philic-17jul17-016	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-17	philic-17jul17-017	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-18	philic-17jul17-018	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-19	philic-17jul17-019	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-20	philic-17jul17-020	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-21	philic-17jul17-021	groups:C | time:C4	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-22	philic-17jul17-022	groups:S | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-23	philic-17jul17-023	groups:F | time:Pre	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-24	philic-17jul17-024	groups:S | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-25	philic-17jul17-025	groups:F | time:2W	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-26	philic-17jul17-026	groups:S | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
SUBJECT_SAMPLE_FACTORS           	ms6756-27	philic-17jul17-027	groups:F | time:M1(4W)	Gender=male; Sample type=plasma; Species=rat; chromatography=philic
#COLLECTION
CO:COLLECTION_SUMMARY            	Rats will either be controls, injected with saline, or injected with ferrous
CO:COLLECTION_SUMMARY            	chloride to influence PTE. Study Groupings: C=control, S=Saline treated,
CO:COLLECTION_SUMMARY            	F=ferrous chloride treated Time: pre=day0, 2W=2 weeks, M1(4W)=1 month
CO:COLLECTION_SUMMARY            	Experimental Flow Day0: baseline pre TBI. Blood and CSF collected Day1: Surgery
CO:COLLECTION_SUMMARY            	for TBI. Injections of Ferrous Cloride or Saline Day2: CSF collected Weeks1-3:
CO:COLLECTION_SUMMARY            	montoring to determine PTE starting point. Blood and CSF collected 1 Month:
CO:COLLECTION_SUMMARY            	montoring of PTE. Blood and CSF collected 2 Month: Animal is euthanized and
CO:COLLECTION_SUMMARY            	blood, CSF, and tissue harvested
CO:SAMPLE_TYPE                   	Blood (plasma)
#TREATMENT
TR:TREATMENT_SUMMARY             	"Rats will either be controls, injected with saline, or injected with ferrous
TR:TREATMENT_SUMMARY             	chloride to influence PTE. Trauma-Induced Epilepsy Model: Ferrous chloride
TR:TREATMENT_SUMMARY             	injection model: Ferrous chloride solution (5 μl of 100 mM with saline) will be
TR:TREATMENT_SUMMARY             	injected at a rate of 0.5 μl/min through a Hamilton micro-syringe controlled by
TR:TREATMENT_SUMMARY             	a micro-pump (UMP3, WPI, FL). Once the ferrous chloride solution injection is
TR:TREATMENT_SUMMARY             	completed, the syringe will remain in position for 5 minutes, and then it will
TR:TREATMENT_SUMMARY             	be removed slowly. The burr holes will be closed with light-curing dental
TR:TREATMENT_SUMMARY             	cement. The dose of ferrous chloride injection was determined from prior
TR:TREATMENT_SUMMARY             	published reports from mouse, rat, and cat. They all used 100 mM ferrous
TR:TREATMENT_SUMMARY             	chloride aqueous solution and volumes were various: 1 μl for mouse,14 5 μl for
TR:TREATMENT_SUMMARY             	rat (200-300 g),15 and 10 μl for cat (2-4 Kg).15 Video monitoring: The use of
TR:TREATMENT_SUMMARY             	24 x 7 video monitoring and review means that we do not have to rely on the rats
TR:TREATMENT_SUMMARY             	having seizures during daily rounding or at some other time when a human happens
TR:TREATMENT_SUMMARY             	to be present in the home cage. Normally, the video will be watched in time
TR:TREATMENT_SUMMARY             	lapse, fast-forward mode to scan for potential seizures. The reviewer can then
TR:TREATMENT_SUMMARY             	stop the video, rewind and watch the behavioral episode in real-time or slow
TR:TREATMENT_SUMMARY             	motion to determine whether a seizure actually occurred. Behavioral seizures
TR:TREATMENT_SUMMARY             	will be identified by any combination or sequence of the following: loss of
TR:TREATMENT_SUMMARY             	postural control (opisthotonus), tonic flexion or extension of limbs or
TR:TREATMENT_SUMMARY             	head/neck, and clonic movements of limbs or head/neck. Often, behavioral
TR:TREATMENT_SUMMARY             	seizures in rats may be accompanied by drooling, urination and facial twitches,
TR:TREATMENT_SUMMARY             	although these may not always be observable on video. In addition, seizures will
TR:TREATMENT_SUMMARY             	likely be followed by a postictal phase, which may include a period of running,
TR:TREATMENT_SUMMARY             	jumping and general agitation. Video monitoring cannot detect subclinical or
TR:TREATMENT_SUMMARY             	electrographic seizures (i.e., seizures without a behavioral component). Video
TR:TREATMENT_SUMMARY             	will be reviewed in this way for each rat in order to establish that a cortical
TR:TREATMENT_SUMMARY             	injured rat does indeed have epilepsy, to establish the “typical seizure”
TR:TREATMENT_SUMMARY             	pattern in each rat, and to help establish a seizure frequency baseline,
TR:TREATMENT_SUMMARY             	although it is understood that video monitoring alone might occasionally miss a
TR:TREATMENT_SUMMARY             	seizure. EEG monitoring: To prevent imaging distortion and ferromagnetic
TR:TREATMENT_SUMMARY             	interference, graphite carbon electrodes will be fabricated and/or purchased. A
TR:TREATMENT_SUMMARY             	total of five electrodes will be implanted for EEG monitoring on the skull. EEG
TR:TREATMENT_SUMMARY             	will be monitored with the Open EPhys System.18 While EEG recording, EEG
TR:TREATMENT_SUMMARY             	electrodes will be connected to wires attached to the ceiling of a cage. In
TR:TREATMENT_SUMMARY             	trauma-induced epilepsy rats, spontaneous neural activity will be recorded using
TR:TREATMENT_SUMMARY             	a wide bandwidth (0-9 kHz) recording system. Post-analysis will be used to
TR:TREATMENT_SUMMARY             	identify epilepsy signals."
#SAMPLEPREP
SP:SAMPLEPREP_SUMMARY            	large scale profiling using rat plasma
#CHROMATOGRAPHY
CH:CHROMATOGRAPHY_TYPE           	Reversed phase
CH:INSTRUMENT_NAME               	Agilent 1290 Infinity
CH:COLUMN_NAME                   	Waters Acquity HSS C18 (150 x 2.1mm, 1.8um)
#ANALYSIS
AN:ANALYSIS_TYPE                 	MS
#MS
MS:MS_COMMENTS                   	-
MS:INSTRUMENT_NAME               	Agilent 6550 QTOF
MS:INSTRUMENT_TYPE               	QTOF
MS:MS_TYPE                       	ESI
MS:ION_MODE                      	NEGATIVE
MS:MS_RESULTS_FILE               	ST001020_AN001671_Results.txt	UNITS:intensity
#END