This Firpo20190104_README.txt file was generated on [20170726] by [Matthew A. Firpo] ------------------- GENERAL INFORMATION ------------------- 1. Title of Dataset Data for : Role of Free Radical Formation in Murine Cytomegalovirus–Induced Hearing Loss 2. Author Information Principal Investigator Contact Information Name: Matthew A. Firpo, PhD Institution: University of Utah Address: 30 N 1900 E Salt Lake City UT 84132 Email: matt.firpo@hsc.utah.edu Associate or Co-investigator Contact Information Name: Albert H. Park, MD Institution: University of Utah Address: 30 N 1900 E Salt Lake City UT 84132 Email:albert.park@hsc.utah.edu Alternate Contact Information Name: Jun Yang, PhD Institution: University of Utah Address: 65 Mario Capecchi Drive, Salt Lake City, UT 84132 Email: jun.yang@hsc.utah.edu 3. Date of data collection (single date, range, approximate date) 20140508 - 20170622 4. Geographic location of data collection (where was data collected?): Salt Lake City, Utah 5. Information about funding sources that supported the collection of the data: This work was supported in part by a Career Development Award from the Triological Society to A.P., by NIH grant EY020853 to J.Y. and grants from NIH (EY014800) and the Research to Prevent Blindness Fund for support of imaging facilities. -------------------------- SHARING/ACCESS INFORMATION -------------------------- 1. Licenses/restrictions placed on the data: Creative Commons License with attribution and non-commercial use. 2. Links to publications that cite or use the data: Pecha PP, Almishaal AA, Mathur PD, et al. Role of Free Radical Formation in Murine Cytomegalovirus–Induced Hearing Loss. Otolaryngology–Head and Neck Surgery. 2020;162(5):709-717. doi:10.1177/0194599820901485 3. Links to other publicly accessible locations of the data: NA 4. Links/relationships to ancillary data sets: NA 5. Was data derived from another source? No If yes, list source(s): 6. Recommended citation for the data: Pecha PP, Almishaal AA, Mathur PD, et al.2019 Data for Role of Free Radical Formation in Murine Cytomegalovirus–Induced Hearing Loss. The Hive: University of Utah Data Repository. https://doi.org/10.7278/S50D-D0WT-SV00 --------------------- DATA & FILE OVERVIEW --------------------- 1. File List A. Filename: Firpo20190104_README.txt Short description: 1 file: this document B. Filename: (as listed) SEM Images Short description: 128 files: SEM images (.tif file extension) generated from cochlea of BALB/c mice. 04082015_cmv+dmet_apex_q064.tif 04082015_cmv+dmet_apex_q067.tif 04082015_cmv+dmet_apex_q080.tif 04082015_cmv+dmet_base_q065.tif 04082015_cmv+dmet_base_q066.tif 04082015_cmv+dmet_base_q068.tif 04082015_cmv+dmet_base_q069.tif 04082015_cmv+dmet_base_q070.tif 04082015_cmv+dmet_base_q071.tif 04082015_cmv+dmet_base_q072.tif 04082015_cmv+dmet_base_q076.tif 04082015_cmv+dmet_base_q077.tif 04082015_cmv+dmet_base_q078.tif 04082015_cmv+dmet_mid_q062.tif 04082015_cmv+dmet_mid_q063.tif 04082015_cmv+dmet_mid_q073.tif 04082015_cmv+dmet_mid_q074.tif 04082015_cmv+dmet_mid_q075.tif 04082015_cmv+dmet_mid_q079.tif 04082015_cmv+dmet_mid_q081.tif 04212015_cmv+dmet_apex_q137.tif 04212015_cmv+dmet_apex_q138.tif 04212015_cmv+dmet_apex_q139.tif 04212015_cmv+dmet_apex_q140.tif 04212015_cmv+dmet_apex_q141.tif 04212015_cmv+dmet_apex_q142.tif 04212015_cmv+dmet_apex_q143.tif 04212015_cmv+dmet_apex_q144.tif 04212015_cmv+dmet_apexmid_q149.tif 04212015_cmv+dmet_apexmid_q150.tif 04212015_cmv+dmet_apexmid_q151.tif 04212015_cmv+dmet_base_q152.tif 04212015_cmv+dmet_base_q153.tif 04212015_cmv+dmet_base_q154.tif 04212015_cmv+dmet_base_q155.tif 04212015_cmv+dmet_base_q156.tif 04212015_cmv+dmet_base_q157.tif 04212015_cmv+dmet_base_q158.tif 04212015_cmv+dmet_base_q160.tif 04212015_cmv+dmet_base_q161.tif 04212015_cmv+dmet_base_q162.tif 04212015_cmv+dmet_base_q163.tif 04212015_cmv+dmet_base_q164.tif 04212015_cmv+dmet_mid_q145.tif 04212015_cmv+dmet_mid_q146.tif 04212015_cmv+dmet_mid_q147.tif 04212015_cmv+dmet_mid_q148.tif 04212015_cmv+dmet_mid_q165.tif 04212015_cmv+dmet_mid_q166.tif 04212015_cmv+dmet_mid_q167.tif 04212015_cmv+dmet_midbase_q159.tif 10262016_cmv+acemg_apex_008.tif 10262016_cmv+acemg_apex_009.tif 10262016_cmv+acemg_apex2_010.tif 10262016_cmv+acemg_apex2_011.tif 10262016_cmv+acemg_apex3_012.tif 10262016_cmv+acemg_apex4_016.tif 10262016_cmv+acemg_base_002.tif 10262016_cmv+acemg_base_005.tif 10262016_cmv+acemg_base2_013.tif 10262016_cmv+acemg_base3_017.tif 10262016_cmv+acemg_base3_018.tif 10262016_cmv+acemg_base3_019.tif 10262016_cmv+acemg_mid_000.tif 10262016_cmv+acemg_mid_001.tif 10262016_cmv+acemg_mid_003.tif 10262016_cmv+acemg_mid_004.tif 10262016_cmv+acemg_mid_006.tif 10262016_cmv+acemg_mid_007.tif 10262016_cmv+acemg_midtobase2_014.tif 10262016_cmv+acemg_midtobase2_015.tif 10262016_cmvonly_apex1(2).tif 10262016_cmvonly_apex1(3).tif 10262016_cmvonly_apex1.tif 10262016_cmvonly_apex2_007.tif 10262016_cmvonly_apex2_012.tif 10262016_cmvonly_apex3_013.tif 10262016_cmvonly_apex3_014.tif 10262016_cmvonly_apex4_015.tif 10262016_cmvonly_apextomid4_015.tif 10262016_cmvonly_base_2.tif 10262016_cmvonly_base_3.tif 10262016_cmvonly_base_zoomed_022.tif 10262016_cmvonly_base1.tif 10262016_cmvonly_base3(2).tif 10262016_cmvonly_base3.tif 10262016_cmvonly_base4.tif 10262016_cmvonly_mid1(2).tif 10262016_cmvonly_mid1.tif 10262016_cmvonly_mid2(2).tif 10262016_cmvonly_mid2.tif 10262016_cmvonly_mid3(2).tif 10262016_cmvonly_mid3.tif 10262016_cmvonly_mid4(2).tif 10262016_cmvonly_mid4.tif 10262016_cmvonly_midtobase1.tif 10262016_cmvonly_midtobase2.tif 10262016_cmvonly_midtobase3.tif 10262016_cmvonly_midtobase4.tif 11022016_acemg_apex1.tif 11022016_acemg_apex2.tif 11022016_acemg_apex3.tif 11022016_acemg_base.tif 11022016_acemg_base1.tif 11022016_acemg_base2(2).tif 11022016_acemg_base2.tif 11022016_acemg_base3(2).tif 11022016_acemg_base3.tif 11022016_acemg_mid1(2).tif 11022016_acemg_mid1.tif 11022016_acemg_mid2.tif 11022016_acemg_mid3(2).tif 11022016_acemg_mid3.tif 11022016_notreatment_apex_001.tif 11022016_notreatment_apex2_008.tif 11022016_notreatment_apex3_009.tif 11022016_notreatment_base_004.tif 11022016_notreatment_base_011.tif 11022016_notreatment_base_highmag.tif 11022016_notreatment_base2_005.tif 11022016_notreatment_base2_013.tif 11022016_notreatment_base3_012.tif 11022016_notreatment_base3_014.tif 11022016_notreatment_mid_002.tif 11022016_notreatment_mid_003.tif 11022016_notreatment_mid2_006.tif 11022016_notreatment_mid3_010.tif 11022016_notreatment_mid3tobase3_015.tif DHE Images Short description: 49 files: DHE images (.tif file extension) generated from mid-cochlear turn of BALB/c mice. 10272016_Uninfected_20X_1X_498_6.tif 10092016_ACEMgOnly_20X_1X_498_1.tif 10092016_ACEMgOnly_20X_1X_498_2.tif 10092016_ACEMgOnly_20X_1X_498_3.tif 10092016_CMV+ACEMg_20X_1X_498_1.tif 10092016_CMV+ACEMg_20X_1X_498_2.tif 10092016_CMV+ACEMg_20X_1X_498_3.tif 10092016_CMV+Dmeth_20X_1X_498_1.tif 10092016_CMV+Dmeth_20X_1X_498_2_2.tif 10092016_CMV+Dmeth_20X_1X_498_3.tif 10092016_CMVonly_20X_1X_498_7.tif 10162016_ACEMgOnly_20X_1X_498_1.tif 10162016_ACEMgOnly_20X_1X_498_2.tif 10162016_ACEMgOnly_20X_1X_498_3.tif 10162016_ACEMgOnly_20X_1X_498_31.tif 10162016_CMV_20X_1X_498_2_6.tif 10162016_CMV+ACEMg_20X_1X_498_1.tif 10162016_CMV+ACEMg_20X_1X_498_2.tif 10162016_CMV+ACEMg_20X_1X_498_3.tif 10162016_CMV+Dmeth_20X_1X_498_1.tif 10162016_CMV+Dmeth_20X_1X_498_2.tif 10162016_CMV+Dmeth_20X_1X_498_3.tif 10162016_CMVonly_20X_1X_498_1.tif 10162016_CMVonly_20X_1X_498_2.tif 10162016_CMVonly_20X_1X_498_3.tif 10162016_CMVonly_20X_1X_498_4.tif 10162016_CMVonly_20X_1X_498_6.tif 10162016_Uninfected_20X_1X_498_1.tif 10162016_Uninfected_20X_1X_498_2.tif 10162016_Uninfected_20X_1X_498_3.tif 10162016_Uninfected_20X_1X_498_4.tif 10162016_Uninfected_20X_1X_498_5.tif 10162016_Uninfected_20X_1X_498_6.tif 10272016_ACEMgOnly_20X_1X_498_1.tif 10272016_ACEMgOnly_20X_1X_498_2.tif 10272016_CMV+ACEMg_20X_1X_498_1.tif 10272016_CMV+ACEMg_20X_1X_498_2.tif 10272016_CMV+ACEMg_20X_1X_498_3.tif 10272016_CMV+Dmeth_20X_1X_498_1.tif 10272016_CMV+Dmeth_20X_1X_498_2.tif 10272016_CMV+Dmeth_20X_1X_498_3_2.tif 10272016_CMVonly_20X_1X_498_1.tif 10272016_CMVonly_20X_1X_498_3.tif 10272016_CMVonly_20X_1X_498_4.tif 10272016_CMVonly_20X_1X_498_5.tif 10272016_CMVonly_20X_1X_498_6.tif 10272016_Uninfected_20X_1X_498_1.tif 10272016_Uninfected_20X_1X_498_2.tif 10272016_Uninfected_20X_1X_498_3.tif 2. Relationship between files: Raw images, in the form of TIFF files, are included. 3. Additional related data collected that was not included in the current data package: 4. Are there multiple versions of the dataset? No If yes, list versions: Name of file that was updated: i. Why was the file updated? ii. When was the file updated? Name of file that was updated: i. Why was the file updated? ii. When was the file updated? -------------------------- METHODOLOGICAL INFORMATION -------------------------- 1. Description of methods used for collection/generation of data: BALB/c were bred to generate pups used for experiments. All procedures and experiments were approved by the University of Utah Institutional Animal Care and Use Committee. Animals were housed and bred under pathogen-free conditions at the Central Animal Facility at the University of Utah. Mice were injected via an intracerebral route at post-natal day 3 (P3) of life as previously described [Wang et al. A Comparison of Different Murine Models for Cytomegalovirus-Induced Sensorineural Hearing Loss. The Laryngoscope. 2013. Epub 2013/04/26. doi: 10.1002/lary.24090. PubMed PMID: 23616191]. Briefly, the pups were momentarily placed on ice to induce anesthesia. The mouse was manually restrained, and a 10 μL Hamilton syringe with a 30G needle was inserted past the calvarium in the midparietal region to inject 200 plaque forming units (pfu) of virus in a volume of 1 µl. Uninfected control mice received 1 µl phosphate-buffered saline (PBS) carrier. Antioxidant or carrier treatment was administered 1 hour before and 1 hour after CMV (or carrier) inoculation and continued twice a day for 14 days. For SEM images: At 28 days post treatment, mice were anaesthetized and then exsanguinated using 2.5% glutaraldehyde in PBS via transcardial perfusion. Temporal bones were harvested and fixed in 2.5% glutaraldehyde/PBS overnight at 4ºC and decalcified in 100 mm EDTA for several days. The cochleas were further dissected, rinsed in PBS and post-fixed by alternative incubations in 1% osmium tetroxide (Ted Pella), water and freshly prepared 1% thiocarbohydrizide (Ted Pella). Incubations in 1% Osmium tetroxide was an hour long, 1% thiocarbohydrazide were 20 minutes long and water were 2 min long. Then the cochlear tissues were washed in deionized water and dehydrated in graded ethanol series and critical-point-dried. Images were taken using a Hitachi S-4800 scanning electron microscope. For DHE images: Animals at 7 days post inoculation were deeply anesthetized and transcardially perfused with cold 100 units/L heparin in 1x PBS. The cochleae were rapidly removed, and the samples were then decalcified in EDTA (10%), incubated overnight in sucrose (5%), followed by 15% sucrose and stored at 4°C until cryosectioned. The samples were embedded in porcine gelatin, and cryosectioned at a thickness of 10-12 µm. The cochlear specimens were incubated with 5 µM DHE (Invitrogen) in PBS for 30 min at 37°C, washed twice with PBS, and then coverslipped. Fluorescent images of mid-modiolar cochlear cryosections were acquired using a laser confocal microscope (Model FV1000, Olympus, Tokyo, Japan). For immunofluorescence detection, a laser wavelength of 594 nm was used for excitation of Alexa Fluor 594, resulting in an emission of 618 nm. Cochlear cross-sections from controls and CMV-infected mice were stained on the same day under the same condition to reduce variations. Fluorescent signals were subsequently taken using the same confocal imaging settings. 2. Methods for processing the data: Raw images are submitted without further processing. 3. Instrument- or software-specific information needed to interpret the data: NA 4. Standards and calibration information, if appropriate: NA 5. Environmental/experimental conditions: NA 6. Describe any quality-assurance procedures performed on the data: NA 7. People involved with sample collection, processing, analysis and/or submission: Ali A. Almishaal Phayvanh P. Sjogren Pranav D. Mathur ----------------------------------------- DATA-SPECIFIC INFORMATION FOR: [FILENAME] ----------------------------------------- 1. Number of variables: 2 A) infection = mCMV infected or uninfected B) treatment = ACE-Mg or D-met 2. Number of cases/rows: 3-5 cochleae examined per group 3. Variable List A. Name: infection Description: mCMV infected or sham infected Value labels if appropriate cmv in filename indicates mCMV infection, otherwise uninfected B. Name: treatment Description: ACE-Mg or D-methionine Value labels if appropriate ACE-Mg treatment indicated by "acemg" in filename D-methionine treatment indicated by "dmet" in filename otherwise sham treatment 4. Missing data codes: Code/symbol Definition Code/symbol Definition 5. Specialized formats of other abbreviations used Each SEM file is named as such: Date_ExperimentalCondition_CochlearRegion_Number.ext Date = the date image was acquired; ExperimentalCondition – indicates infection and treatment variables CochlearRegion = three options – Apex, Mid, or Base There are some with transitional cochlear regions Number = could be one of two things – image number automatically assigned by instrument or mouse number Ext = TIFF Each DHE file is named as such: Date_ExperimentalCondition_Magnification_DigitalMagnification_Number.ext Date = the date image was acquired; ExperimentalCondition – indicates infection and treatment variables Magnification = 20X for all images DigitalMagnification = 1x for all images Number = could be one of two things – image number automatically assigned by instrument or mouse number Ext = TIFF