.. role:: raw-html-m2r(raw) :format: html Open Science Abbreviations ========================== Open Science Abbreviations :raw-html-m2r:`` ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ `For more information, this website is a valuable resource when looking up any NASA-specific acronyms `_. General Abbreviations :raw-html-m2r:`` ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ **Abbreviation Definition** OSDR Open Science Data Repository BDME Biological Data Management Environment GL GeneLab GLDS GeneLab Data Systems ALSDA Ames Life Sciences Data Archive NBISC NASA Biological Institutional Scientific Collection RDSA Research Data Submission Agreement Data Systems Abbreviations :raw-html-m2r:`` ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Abbreviation Definition MVP Minimum Viable Product Sample OSDR Abbreviations :raw-html-m2r:`` ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ experiment to establish the initial condition of the experimental subjects pFLT parabolic flight pGC ground control for parabolic flight (i.e. samples were grown/processed in the same equipment as those in the pFLT groups) soFLT suborbital ballistic rocket flight soGC ground control for suborbital ballistic rocket flight (i.e. samples were grown/processed in the same equipment as those in the soFLT groups) CTRL control group for a space-relevant (but NOT spaceflight) experiment HLU hind limb unloading (aka hindlimb suspension) RL re-loaded - subjects re-exposed to limb/body loading HLLC hind limb loaded control TRHLLC tail restrained hind limb loaded control uG microgravity HG hypergravity http://bioportal.bioontology.org/ontologies/MESH?p=classes\&conceptid=D018471 1G 1x gravity 2G 2x gravity act activated nonact non-activated Tcells T cells Dmel Drosophila melanogaster Can-S Canton-Special (strain of Drosophila melanogaster) Ecol Escherichia coli Bbas Beauveria bassiana infdw infected with uninfd uninfected sham-infd sham infected, treated similarly to the infected group but administered a control solution that does not contain an infectious agent (i.e. treated with PBS, water, etc.) Atha Arabidopsis thaliana Brap Brassica rapa nipp nipposinica (variant of Brassica rapa) Etsl Etiolated seedlings - after further review I think "etiolation" should be made into standalone factor Kristen here - etiolation is a condition of a sample we deal with differently now. UdCC undifferentiated cell culture BA1 BRIC A PDFU-1 BA2 BRIC A PDFU-2 BA3 BRIC A PDFU-3 BA4 BRIC A PDFU-4 BA5 BRIC A PDFU-5 BB2 BRIC B PDFU-2 BB3 BRIC B PDFU-3 BB4 BRIC B PDFU-4 BB5 BRIC B PDFU-5 BG1 BRIC G PDFU-1 BG2 BRIC G PDFU-2 BG3 BRIC G PDFU-3 WT wild-type MUT mutant wo whole organism ADR Adrenal Glands AT Adipose Tissue BAT Brown Adipose Tissue BRN Brain Cb Cerebellum CLN Colon DSKN Dorsal Skin EDL Extensor Digitorum Longus eWAT Epididymal White Adipose Tissue EYE Eye FCS Feces FSKN Femoral Skin GST Gastrocnemius HPC Hippocampus iBAT Intrascapular Brown Adipose Tissue iWAT Inginal White Adipose Tissue KDN Kidney LD Longissimus Dorsi Muscle Lg-INT Large Intestines LNG Lung LVR Liver HRT Heart INT Intestines MG Mammary Gland OVY Ovary or Ovaries Quad Quadricep RTN Retina SKN Skin SLS Soleus SM Skeletal Muscle SPL Spleen TA Tibialis Anterior TES Testis or Testes TMS Thymus TNG Tongue WAT White Adipose Tissue RR Rodent Research MHU Mouse Habitat Unit (JAXA mouse habitat unit) FS Freezing Study JAXA Japan Aerospace Exploration Agency CC Cohort Control C# Cohort Number LAR Live Animal Return ISS-T ISS Terminal Animal NuRFB Nutrient Upgraded Rodent Food Bar IR Irradiation BSP Biospecimen Sharing Program LSDA Life Science Data Archive ALSDA Ames Life Science Data Archive ACF Animal Care Facility LLU Loma Linda University KSC Kennedy Space Center RNA Ribonucleic acid DNA Deoxyribonucleic acid PRT Protein ALQ Aliquot LN2 Liquid nitrogen RNAlat RNA later RIN RNA integrity number DIN DNA integrity number MIX1 ERCC Spike In mix 1 MIX2 ERCC Spike In mix 2 BLD Blood - we may want to revisit this - Whole Blood (WB), White Blood Cells (WBCs), Red Blood Cells (RBCs) WB whole blood WBCs White Blood Cells RBCs Red Blood Cells leu Leukocytes L Left Lg Large R Right D Dorsal V Ventral F Femoral OD Optical Density URR Universal Reference RNA UHRR Universal Human Reference RNA UMRR Universal Mouse Reference RNA Gspe Genus species C57-6J C57BL/6 mouse from Jackson Labs OR Oregon R (Fruit Fly strain) act2-3 Arabidopisis thaliana vegetative actin mutant Col-0 Arabidopsis thaliana Columbia-0 ecotype C57-10J C57BL/10J mouse from Jackson Labs Ler-0 Landsberg ecotype sShoots seedling shoots - will probably change. describes development AND anatomy. will review in JIRA process Amanda M. Saravia-butler C57-6IBCh C57BL/6 mouse from Shemyakin & Ovchinnikov Institute of Bioorganic Chemistry, Russia C57-6T C57BL/6 mouse from Taconic Biosciences I dissected immediately after euthanasia C dissected from frozen carcass ARG1-KO A. thaliana Col-0 knock-out line deficient in the gene named Altered response to gravity-1 JkTcells Jurkat T cells C57-6CR C57BL/6 mouse from Charles River os-ind osteo-induced not-ind not induced BMSC Bone Marrow Stromal Cells MSCs Mesenchymal Stem Cells EMF treated with electromagnetic fields suG simulated microgravity LDC Large Diameter Centrifuge RPoM Random Positioning Machine ML Magnetic Levitator do days old yo years old C Celsius oLDC outside the Large Diameter Centrifuge oRPoM outside the Random Positioning Machine oML outside the Magnetic Levitator YR Gamma Radiation HZE High (H) Charge (Z) and Energy (E) HZE ionizing radiation ATM1 mutant defective in the DSB-sensing protein kinase ATM Gy Gray sl seedling sl-pool pool of 2 or more whole seedlings lvCMC left ventricular cardiomyocytes MCL medial collateral ligament Rnor Rattus norvegicus Sx surgery noSx no surgery shamSx sham surgery bildisMCL bilateral disruption of the medial collateral ligament lpup late pupae - may want to revisit. combining time/development and organism part dT delta (change in) Temperature NOdT no change in Temperature ltdO2 limited Oxygen normO2 normal Oxygen levels Ws-0 Wassilewskija-0 (Arabidopsis thaliana) ecotype, species variant 391 Ws-2 Wassilewskija-2 (Arabidopsis thaliana) ecotype, species variant 393 Ws Wassilewskija (Arabidopsis thaliana) ecotype, species variant 382 Cvi-0 Cape Verde Islands - 0 (Arabidopsis thaliana) ecotype, species variant 98 suppO2 supplemented with Oxygen kPa kilopascals Hml-Gal4-UASGFP Hemolectin-GAL4 crossed with UAS-GFP to make a transgenic line in Dmel TKSC Tsukuba Space Center (JAXA) N2 Bristol N2 (C.elegans strain) Clinorotation Clinorotation ISS International Space Station RWV Rotating Wall Vessel 2T3cells osteoblast cell line 2T3 LS292 C.elegans strain representing a dys1(cx18) mutant HF Hair Follicles inFLT in spaceflight (describes condition in which sample was collected) preFLT pre spaceflight (describes condition in which sample was collected) postFLT post spaceflight (describes condition in which sample was collected) BAL-SL BALB/c mouse from Simonsen Labs BAL-JL BALB/c mouse from Jackson Laboratory BAL-TAL BALB/c mouse from Taconic Animal Laboratory 4T1-Tumor Flank tumor derived from the 4T1 murine mammary carcinoma cell line that was generated from a BALB/cfC3H mouse 1D11 Antibody that binds to TGFB and thus inhibits function IsoCTRL Isotype control - primary antibodies that lack specificity to the target, but match the class and type of the primary antibody used in the application TGFB-Het TGFBeta-Heterozygote Sham type of control sample post-Sham describes sample post sham post-IR describes sample post irradiation wk week (Time) LCL Lymphoblastoid Cell Line Amanda M. Saravia-butler i have a dataset we could test this on. Lets revisit this one GM15036 Lymphoblastoid Cell Line GM15036 GM15510 Lymphoblastoid Cell Line GM15510 RCCS Rotary Cell Culture System RAW2647cells RAW 264.7 cell line TK6cells TK6 Lymphoblast Cell Line cax1-1 describes cax1-1 transgenic line of Arabidopsis thaliana SDR Sprague Dawley Rats (for general use when source is not available Amanda M. Saravia-butler ) SDR-TF Sprague Dawley Rats from Taconic Farms 56Fe Iron isotope C3H-He-Slc C3H/He mice from Japan Slc, Inc. C57-6J-Jms- Slc C57BL/6J Jms mice from Japan Slc, Inc. AJ-Jms-Slc A/J Jms mice from Japan Slc, Inc h hour (Time) Cs137 Caesium-137 isotope Epi200MT 3-dimensional tissue model of human epidermis, MatTek Corporation, Ashland, MA SMK Smoker - not to be confused with Super Mario Kart nSMK non-Smoker um micrometer tumor tumor MCF10Acells MCF10A cells - human mammary epithelial cells TGFB Tumor Growth Factor Beta X-ray X-ray irradiation Preg Pregnant Lac Lactating Hi-LET High Linear Energy Transfer Si Silicon isotope C3H-HeJ C3H Heston mouse from Jackson Labs (aka C3H/HeJ) d day (time) K-12MG1655 strain (of E. coli) K-12 MG1655 HBF hyper-buoyancy flotation (used for bed-rest study) VL vastus lateralis Rep replicate Hsap Homo sapiens Mmus Mus musculus shamIR mock irradiation (i.e. subject to irradiation equipment but not exposed to irradiation) HUVEC Cells derived from the endothelium of veins from the umbilical cord Scer Saccharomyces cerevisiae BY4742 Strain of Saccharomyces cerevisiae BY4742_FLO1 S. cerevisiae strain BY4742 over-expressing the FLO1 member of the Flo adhesin protein family BY4742_FLO8 S. cerevisiae strain BY4742 over-expressing the FLO8 member of the Flo adhesin protein family Cele Caenorhabditis elegans BMCs bone marrow cells BM bone marrow Euth Euthasol DI Dry Ice Ket-Xyl Ketamine/Xylazine ext1 RNA was extracted the same day organs were dissected from frozen carcasses ext2 Organs were dissected from frozen carcasses, flash frozen in (l)N2 and stored at -80C then RNA was extracted on a later date Lminus Launch minus (usually followed by a time frame, for example Lminus30d means 30 days before launch) Lplus Launch plus (usually followed by a time frame, for example Lplus30d means 30 days after launch) Rminus Return minus (usually followed by a time frame, for example Rminus30d means 30 days before return to earth) Rplus Return plus (usually followed by a time frame, for example Rplus30d means 30 days after return to earth) CO2 Carbon Dioxide RLT RNeasy Lysis Buffer IRC Irradiation Control - No mock IR was performed, i.e. subjects were not exposed to IR nor an IR set-up F# mouse number from a spaceflight group G# mouse number from a ground control group B# mouse number from a basal group V# mouse number from a vivarium group R1 Forward Read R2 Reverse Read JC JAXA Chow JCwFOS JAXA Chow fortified with fructooligosaccharides (FOS) Alight specimen grown in Ambient light dark specimen grown in darkness Col-0-PhyD Columbia ecotype with a mutation in phytochrome D (PhyD) mon month y year(s) SP spleen pool - spleens from 2 or more animals pooled together to make one sample ss-tissues tissues that underwent size selection during library prep (after extraction) tissues more than 1 tissue from 1 animal was pooled MCC MidiCAR centrifuge MgSO4 magnesium sulfate min minute Rotation rotation Hypocotyl hypocotyl HypocotylCC Hypocotyl cell culture (a cell culture derived from the hypocotyl part of the plant) PBLD Peripheral Blood In-FLT-CTRL In-flight Control PC pipette centrifuge Olat Oryzias latipes TGFP-ODsRed Oryzias latipes (Japanese medaka) F1 fish of two closed colonies; Japanese medaka wild type Cab and Cab strain transgenic fish (TRAP:GFP, Osterix:DsRed) NCTC-86 strain (of E. coli) NCTC 86; ATCC 4157 ug-mL concentration in micrograms per milliliter Smut Streptococcus mutans ITS internal transcribed spacer Paer Pseudomonas aeruginosa RWV-V Rotating Wall Vessel in veritical direction RWV-H Rotating Wall Vessel in horizontal direction PA01 PAO1 strain - Pseudomonas aeruginosa HMVEC-dBL Human dermal microvascular endothelial cells LPS lipopolysaccharide S-UHRR Stratagene Universal Human Reference RNA PTN-OSF1 transgenic mice overexpressing the osteogneic factor PTN/OSF1 cells material type - cell line DLD-1 DLD-1 cells epithelial, adherent cell line derived from a colorectal adenocarcinoma (Dukes type C) MOLT-4 MOLT-4 cell line T lymphoblast, suspension cell line derived from an acute lymphoblastic leukemia IMR90iPSCs induced pluripotent stem cells derived from the IMR90 human cell line CPCs Cardiac progenitor cells PhaB Pharyngeal Bones Cab wild type Cab strain of Oryzias latipes (Japanese medaka fish) LC Laboratory control - may refer to a control group or groups grown under standard laboratory conditions and processed to test an aspect(s) of spaceflight experimental parameters TLCs T lymphocyte cells cGy centigray 168 Strain of Bacillus subtilis PBMCs peripheral blood mononuclear cells pip2Dclino 2D pipette clinostat pipcent pipette centrifuge ALLCL acute lymphoblastic leukemia cell line CRCCL colorectal cancer cell line GF Glovebox Freezer CyroC Cyrochiller WCar Whole Carcass (i.e. the sample was extracted from an intact carcass) PCar Partial Carcass (i.e. the samples was extracted from a carcass that had one or more part(s) removed) Esco Euprymna scolopes aposym aposymbiotic sym symbiotic HARV high-aspect-ratio rotating wall vessel bioreactors LO Light Organ UAMS-1 Strain of Staphylococcus aureus Saur Staphylococcus aureus Mmar Mycobacterium marinum LHM4 Strain of Mycobacterium marinum InsP-5-ptase transgenic Arabidopsis thaliana (Columbia-0) plants constitutively express the mammalian type I inositol polyphosphate 5- phosphatase (InsP 5-ptase) LLC Lewis lung carcinoma LLCtumor Tumor derived from Lewis lung carcinoma cells LLCcells Lewis lung carcinoma cells Trp53N-MG Trp53 null mammary gland B6. 129S2KrasLA1 B6.129S2-Krastm2Tyj/Nci Mouse strain - This strain carries a targeted latent 'hit-and-run' K-ras allele that can be activated by an in vivo spontaneous recombination event ('run'). One half of the in vivo recombination events result in a normal K-ras allele and one half in an activated allele (K-rasG12D). Trp53N-MGT Trp53 null mammary gland tumor Drer Danio rerio PBLs peripheral blood lymphocytes AG01522 human fibroblasts AG01522 cells ble bleomycin FBC fibroblasts cells Low-LET Low Linear Energy Transfer C57-6 C57BL/6 mouse from an unknown origin cls plant callus T tesla (magnetic field unit) MM2d Arabidopsis thaliana MM2d cell line Bsub Bacillus subtilis S288C strain of Saccharomyces cerevisiae HIR Heavy Ion Radiation TNR Thermal Neutron Radiation FNR Fast Neutron Radiation HSFA2-KO a knockout Arabidopsis thaliana line deficient in the gene encoding HSFA2 AB Strain of Danio rerio WN624 Strain of Bacillus subtilis WN1106 Strain of Bacillus subtilis HEBC3KT a human bronchial epithelial cell line 28Si Si 28 isotope Zone-I region of root apex: 0.5 mm, root cap and meristematic zone Zone-II region of root apex: 1.5 mm, transition, elongation and growth terminating zone Node3 node 3 of ISS AHSFS air handling system filter screen of ISS SIEV sieved Batr Bacillus atrophaeus blank no DNA or RNA added to extraction kit PAS passive aerosol sample HBECs human bronchial epithelial cells 2D cells grown in 2D condition 3D cells grown in 3D condition TT tetanus toxoid (treatment with tetanus toxoid) noTT tetanus toxoid control (animals were not treated with tetanus toxoid, just the solution used to dilute the tetanus toxoid) ODNCpG adjuvant treatment of a synthetic oligodeoxynucleotide (ODN) containing unmethylated CpG motifs (CpG) noODNCpG adjuvant treatment control (animals were not treated with ODNCpG, just the solution used to dilute the ODNCpG) AG1522 a normal human foreskin fibroblast cell line HT1080 a human fibrosarcoma cell line RAD51 RAD51 gene G1 G1 phase of cell cycle G2 G2 phase of cell cycle Asyn Asynchronous cells, cells in various phases of cell cycle FirstSet first set of animals (or samples) processed/preserved in a given day of operations SecondSet second set of animals (or samples) processed/preserved in a given day of operations ThirdSet third set of animals (or samples) processed/preserved in a given day of operations FourthSet fourth set of animals (or samples) processed/preserved in a given day of operations CTRLSet control set of animals (or samples) processed/preserved in a given day of operations Styp Salmonella typhimurium SL1344 Salmonella enterica subsp. enterica serovar Typhimurium strain SL1344 dhfq isogenic hfq deletion mutant HT-29 human colorectal adenocarcinoma cell line with epithelial morphology U937 human macrophage cell line established from a diffuse histiocytic lymphoma 3DCoC 3D co-culture model LoopG Loop Genomics w1118 strain of Drosophila melanogaster 16S 16S rRNA gene DFVS dust filter of ventilation system VAC vacuum INCd incubated arch archaea uni universal M# mouse number S# subject number scWim sample collected while inside module scAem sample collected after exiting module scBem sample collected before entering module SKF ion channel inhibitor SKF-96365 HRremoved Human Reads removed Heat samples treated with heat noHeat samples not treated with head Anox Anoxia (oxygen deprived) noAnox not Anoxia (not oxygen deprived) mid-age middle-age C57-6NIA C57BL/6 mouse from National Institute of Aging CUMS chronic unpredictable mild stressors Eves Eruca vesicaria CAAT Controlled Artificial Ageing Treatment cop1 cop1 gene uvr8 uvr8 gene PWB partial weight bearing, as with a harness to reduce loading on all limbs - usually followed by a value for the % of loading. Ex: PWB40 \= 40% of normal loading; PWB100 = 100% of loading (or loading control) FEM femur TRIB triceps brachii CVA calvaria