#METABOLOMICS WORKBENCH araskind_20151211_9257891_mwtab.txt DATATRACK_ID:453 efahy_20151228_064502 STUDY_ID:ST000295 ANALYSIS_ID:AN000473 PROJECT_ID:PR000219 VERSION 1 CREATED_ON December 28, 2015, 6:45 am #PROJECT PR:PROJECT_TITLE Metabolic regulation by PARP-1 in myofibroblast differentiation and fibrosis PR:PROJECT_SUMMARY Analysis of wild type lung tissue after saline or bleomycin treatment PR:INSTITUTE University of Michigan PR:LAST_NAME Hu PR:FIRST_NAME Biao PR:ADDRESS Ann Arbor, MI PR:EMAIL biaohu@med.umich.edu PR:PHONE 734-763-5731 #STUDY ST:STUDY_TITLE Metabolic analysis of Parp1 ko/wt Saline & Bleo Mouse Lung Fiboblasts and Human ST:STUDY_TITLE Normal Lung Fiboblasts with TGFbeta and Fizz2 treatment ST:STUDY_SUMMARY Glycolysis/TCA/Nucleotide analysis and NAD+ and related metabolite analysis for ST:STUDY_SUMMARY all samples ST:INSTITUTE University of Michigan ST:DEPARTMENT Biomedical Research Core Facilities ST:LABORATORY Metabolomics core ST:LAST_NAME Kachman ST:FIRST_NAME Maureen ST:ADDRESS 6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714 ST:EMAIL mkachman@med.umich.edu ST:PHONE (734) 232-8175 ST:NUM_GROUPS 6 ST:TOTAL_SUBJECTS 35 #SUBJECT SU:SUBJECT_TYPE Animal/Human SU:SUBJECT_SPECIES Mus musculus;Homo sapiens #SUBJECT_SAMPLE_FACTORS: SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Additional sample data SUBJECT_SAMPLE_FACTORS SU0005146 S00016590 Species:Mus musculus | Genotype:WT | Treatment:saline SUBJECT_SAMPLE_FACTORS SU0005147 S00016591 Species:Mus musculus | Genotype:WT | Treatment:saline SUBJECT_SAMPLE_FACTORS SU0005148 S00016592 Species:Mus musculus | Genotype:WT | Treatment:saline SUBJECT_SAMPLE_FACTORS SU0005149 S00016593 Species:Mus musculus | Genotype:WT | Treatment:saline SUBJECT_SAMPLE_FACTORS SU0005150 S00016594 Species:Mus musculus | Genotype:WT | Treatment:saline SUBJECT_SAMPLE_FACTORS SU0005151 S00016595 Species:Mus musculus | Genotype:WT | Treatment:bleomycin SUBJECT_SAMPLE_FACTORS SU0005152 S00016596 Species:Mus musculus | Genotype:WT | Treatment:bleomycin SUBJECT_SAMPLE_FACTORS SU0005153 S00016597 Species:Mus musculus | Genotype:WT | Treatment:bleomycin SUBJECT_SAMPLE_FACTORS SU0005154 S00016598 Species:Mus musculus | Genotype:WT | Treatment:bleomycin SUBJECT_SAMPLE_FACTORS SU0005155 S00016599 Species:Mus musculus | Genotype:WT | Treatment:bleomycin SUBJECT_SAMPLE_FACTORS SU0005156 S00016600 Species:Mus musculus | Genotype:PARP1 knockout | Treatment:saline SUBJECT_SAMPLE_FACTORS SU0005157 S00016601 Species:Mus musculus | Genotype:PARP1 knockout | Treatment:saline SUBJECT_SAMPLE_FACTORS SU0005158 S00016602 Species:Mus musculus | Genotype:PARP1 knockout | Treatment:saline SUBJECT_SAMPLE_FACTORS SU0005159 S00016603 Species:Mus musculus | Genotype:PARP1 knockout | Treatment:saline SUBJECT_SAMPLE_FACTORS SU0005160 S00016604 Species:Mus musculus | Genotype:PARP1 knockout | Treatment:saline SUBJECT_SAMPLE_FACTORS SU0005161 S00016605 Species:Mus musculus | Genotype:PARP1 knockout | Treatment:bleomycin SUBJECT_SAMPLE_FACTORS SU0005162 S00016606 Species:Mus musculus | Genotype:PARP1 knockout | Treatment:bleomycin SUBJECT_SAMPLE_FACTORS SU0005163 S00016607 Species:Mus musculus | Genotype:PARP1 knockout | Treatment:bleomycin SUBJECT_SAMPLE_FACTORS SU0005164 S00016608 Species:Mus musculus | Genotype:PARP1 knockout | Treatment:bleomycin SUBJECT_SAMPLE_FACTORS SU0005165 S00016609 Species:Mus musculus | Genotype:PARP1 knockout | Treatment:bleomycin SUBJECT_SAMPLE_FACTORS SU0005166 S00016610 Species:Homo sapiens | Genotype:WT | Treatment:None SUBJECT_SAMPLE_FACTORS SU0005167 S00016611 Species:Homo sapiens | Genotype:WT | Treatment:None SUBJECT_SAMPLE_FACTORS SU0005168 S00016612 Species:Homo sapiens | Genotype:WT | Treatment:None SUBJECT_SAMPLE_FACTORS SU0005169 S00016613 Species:Homo sapiens | Genotype:WT | Treatment:None SUBJECT_SAMPLE_FACTORS SU0005170 S00016614 Species:Homo sapiens | Genotype:WT | Treatment:None SUBJECT_SAMPLE_FACTORS SU0005171 S00016615 Species:Homo sapiens | Genotype:WT | Treatment:TGFb SUBJECT_SAMPLE_FACTORS SU0005172 S00016616 Species:Homo sapiens | Genotype:WT | Treatment:TGFb SUBJECT_SAMPLE_FACTORS SU0005173 S00016617 Species:Homo sapiens | Genotype:WT | Treatment:TGFb SUBJECT_SAMPLE_FACTORS SU0005174 S00016618 Species:Homo sapiens | Genotype:WT | Treatment:TGFb SUBJECT_SAMPLE_FACTORS SU0005175 S00016619 Species:Homo sapiens | Genotype:WT | Treatment:TGFb SUBJECT_SAMPLE_FACTORS SU0005176 S00016620 Species:Homo sapiens | Genotype:WT | Treatment:Fizz2 SUBJECT_SAMPLE_FACTORS SU0005177 S00016621 Species:Homo sapiens | Genotype:WT | Treatment:Fizz2 SUBJECT_SAMPLE_FACTORS SU0005178 S00016622 Species:Homo sapiens | Genotype:WT | Treatment:Fizz2 SUBJECT_SAMPLE_FACTORS SU0005179 S00016623 Species:Homo sapiens | Genotype:WT | Treatment:Fizz2 SUBJECT_SAMPLE_FACTORS SU0005180 S00016624 Species:Homo sapiens | Genotype:WT | Treatment:Fizz2 #COLLECTION CO:COLLECTION_SUMMARY - CO:SAMPLE_TYPE Cells #TREATMENT TR:TREATMENT_SUMMARY - #SAMPLEPREP SP:SAMPLEPREP_SUMMARY - SP:SAMPLEPREP_PROTOCOL_FILENAME Glycolysis-TCA-nucleotides-20150324.docx #CHROMATOGRAPHY CH:CHROMATOGRAPHY_TYPE HILIC CH:INSTRUMENT_NAME Agilent 1260 CH:COLUMN_NAME Phenomenex Luna NH2 (150 x 1mm, 3um) CH:METHODS_FILENAME Glycolysis-TCA-nucleotides-20150324.docx CH:METHODS_ID DQM0010 #ANALYSIS AN:ANALYSIS_TYPE MS #MS MS:INSTRUMENT_TYPE QTOF MS:MS_TYPE ESI MS:ION_MODE NEGATIVE MS:MS_COMMENTS TCA MS(-) MS:INSTRUMENT_NAME Agilent 6520 QTOF MS:INSTRUMENT_NAME Agilent 6520 QTOF #MS_METABOLITE_DATA MS_METABOLITE_DATA:UNITS pmol/µg protein MS_METABOLITE_DATA_START Samples S00016590 S00016591 S00016592 S00016593 S00016594 S00016595 S00016596 S00016597 S00016598 S00016599 S00016600 S00016601 S00016602 S00016603 S00016604 S00016605 S00016606 S00016607 S00016608 S00016609 S00016610 S00016611 S00016612 S00016613 S00016614 S00016615 S00016616 S00016617 S00016618 S00016619 S00016620 S00016621 S00016622 S00016623 S00016624 Factors Species:Mus musculus | Genotype:WT | Treatment:saline Species:Mus musculus | Genotype:WT | Treatment:saline Species:Mus musculus | Genotype:WT | Treatment:saline Species:Mus musculus | Genotype:WT | Treatment:saline Species:Mus musculus | Genotype:WT | Treatment:saline Species:Mus musculus | Genotype:WT | Treatment:bleomycin Species:Mus musculus | Genotype:WT | Treatment:bleomycin Species:Mus musculus | Genotype:WT | Treatment:bleomycin Species:Mus musculus | Genotype:WT | Treatment:bleomycin Species:Mus musculus | Genotype:WT | Treatment:bleomycin Species:Mus musculus | Genotype:PARP1 knockout | Treatment:saline Species:Mus musculus | Genotype:PARP1 knockout | Treatment:saline Species:Mus musculus | Genotype:PARP1 knockout | Treatment:saline Species:Mus musculus | Genotype:PARP1 knockout | Treatment:saline Species:Mus musculus | Genotype:PARP1 knockout | Treatment:saline Species:Mus musculus | Genotype:PARP1 knockout | Treatment:bleomycin Species:Mus musculus | Genotype:PARP1 knockout | Treatment:bleomycin Species:Mus musculus | Genotype:PARP1 knockout | Treatment:bleomycin Species:Mus musculus | Genotype:PARP1 knockout | Treatment:bleomycin Species:Mus musculus | Genotype:PARP1 knockout | Treatment:bleomycin Species:Homo sapiens | Genotype:WT | Treatment:None Species:Homo sapiens | Genotype:WT | Treatment:None Species:Homo sapiens | Genotype:WT | Treatment:None Species:Homo sapiens | Genotype:WT | Treatment:None Species:Homo sapiens | Genotype:WT | Treatment:None Species:Homo sapiens | Genotype:WT | Treatment:TGFb Species:Homo sapiens | Genotype:WT | Treatment:TGFb Species:Homo sapiens | Genotype:WT | Treatment:TGFb Species:Homo sapiens | Genotype:WT | Treatment:TGFb Species:Homo sapiens | Genotype:WT | Treatment:TGFb Species:Homo sapiens | Genotype:WT | Treatment:Fizz2 Species:Homo sapiens | Genotype:WT | Treatment:Fizz2 Species:Homo sapiens | Genotype:WT | Treatment:Fizz2 Species:Homo sapiens | Genotype:WT | Treatment:Fizz2 Species:Homo sapiens | Genotype:WT | Treatment:Fizz2 2 or 3-phosphoglycerate 3.097 2.507 3.375 3.868 2.635 6.514 4.190 2.804 2.161 2.298 3.336 2.402 1.541 5.934 3.810 2.764 1.987 1.435 6.802 6.409 2.397 1.545 3.608 1.736 1.978 6.223 5.939 7.376 2.501 1.243 3.842 6.898 7.823 10.039 6.227 6-phosphogluconate 1.565 1.676 1.829 2.103 1.972 3.845 4.047 2.990 2.559 2.630 2.997 2.380 1.940 2.046 4.358 6.282 4.283 3.533 7.126 6.086 2.884 3.151 5.622 3.933 3.991 12.842 7.705 12.713 3.593 2.791 4.481 14.797 19.622 18.135 12.315 Acetyl-CoA 0.472 0.492 0.623 1.025 0.777 0.794 1.048 1.686 0.577 0.919 1.195 1.264 0.694 0.294 0.694 1.133 0.582 0.506 0.644 0.292 0.488 0.893 1.304 0.790 0.543 0.372 0.770 0.911 0.683 0.616 0.614 0.559 0.461 0.806 1.156 ADP 14.341 9.067 16.307 16.510 17.719 0.074 23.927 21.078 8.365 14.189 17.857 18.598 10.180 21.949 14.993 15.119 9.695 8.975 20.982 16.540 11.301 17.393 23.797 23.504 23.899 35.189 37.041 27.535 18.685 15.142 25.112 37.875 33.013 50.691 53.101 AMP 19.391 15.562 25.854 23.081 27.174 19.567 36.510 48.065 14.822 26.648 24.539 47.806 17.066 30.516 19.759 26.506 16.880 15.720 26.992 16.637 15.070 21.246 27.525 33.141 25.782 57.196 52.835 45.018 19.506 19.232 33.462 68.696 72.186 86.030 67.275 ATP 138.466 153.711 161.826 200.803 194.600 236.061 273.021 208.911 146.494 190.445 235.202 196.978 125.405 141.422 245.966 193.976 142.600 108.138 232.705 193.032 133.660 205.144 394.028 310.768 199.310 149.969 186.430 251.575 175.975 147.143 210.040 149.143 117.805 293.760 259.367 citrate or isocitrate 221.634 190.955 230.054 329.864 279.209 240.786 255.447 227.455 103.003 181.570 283.830 249.919 146.518 230.288 299.134 260.580 139.631 127.100 213.652 153.222 26.092 49.056 66.383 51.668 45.752 44.354 55.098 57.600 28.940 26.777 38.140 38.911 28.787 68.770 46.125 erythrose 4-phosphate 6.676 8.261 10.656 9.806 10.977 11.203 16.062 15.053 8.484 10.715 13.216 36.928 5.500 8.414 14.737 15.482 9.554 4.491 12.330 9.823 7.978 7.143 19.724 15.695 7.129 15.047 6.299 22.103 14.866 8.588 10.872 15.279 23.418 28.557 24.325 glucose 6-P or fructose-6-P 9.514 6.722 9.550 12.712 13.263 14.241 15.923 14.939 6.331 10.632 11.523 11.041 6.862 9.176 10.714 12.488 7.261 7.013 10.807 7.983 6.183 10.791 14.000 12.936 11.107 20.126 17.572 19.892 10.386 9.252 10.695 18.019 23.803 24.011 21.269 FAD 0.366 0.190 0.542 0.408 0.500 0.499 0.745 0.635 0.256 0.512 0.627 0.813 0.346 0.570 0.458 0.633 0.276 0.288 0.400 0.344 0.364 0.737 1.003 0.785 0.576 0.521 0.737 0.800 0.573 0.546 0.626 0.461 0.496 0.744 0.356 fructose 1,6-bisphosphate 56.135 46.529 63.313 75.789 67.350 80.114 83.026 65.737 41.586 58.153 67.916 50.597 41.946 59.797 74.429 49.104 42.870 35.593 68.232 56.037 34.175 56.841 82.921 78.231 59.271 100.370 99.525 89.808 55.129 43.915 58.158 101.525 94.797 133.876 112.642 malate 19.820 15.588 20.185 21.861 23.577 29.743 29.923 23.063 9.628 20.399 21.808 19.516 12.053 19.276 15.327 21.448 8.950 10.807 21.373 18.944 6.131 8.972 12.105 13.111 10.060 11.222 11.889 10.758 7.746 7.211 7.915 10.903 10.843 14.264 13.678 NAD 5.755 5.036 7.985 9.493 7.945 11.178 13.769 11.860 4.835 8.681 10.056 11.599 6.490 8.657 7.346 9.940 4.935 5.118 7.713 7.254 8.141 17.392 25.520 22.419 16.129 15.107 15.447 18.772 15.068 12.773 14.658 16.615 15.498 25.764 24.104 NADH 0.680 0.356 0.830 0.959 1.098 0.790 1.651 1.478 0.429 1.140 1.440 1.675 0.823 0.586 0.853 1.591 0.600 0.631 0.704 0.416 0.402 0.791 1.088 1.177 0.627 0.762 0.745 0.957 0.451 0.649 0.542 1.257 0.085 0.967 0.770 NADP 1.234 0.691 1.292 1.166 1.123 2.309 1.597 0.916 0.619 0.823 1.294 0.776 0.601 1.919 1.084 0.820 0.537 0.528 1.522 1.610 0.927 1.329 1.843 1.531 1.988 1.798 2.396 2.170 1.802 1.162 1.649 1.975 1.678 2.906 3.634 NADPH 3.889 5.027 6.004 7.031 7.291 4.393 9.451 7.877 5.501 6.973 8.298 8.029 4.916 2.428 8.680 6.963 5.493 3.707 6.297 2.635 2.832 4.460 10.152 7.588 3.237 2.327 1.338 5.142 2.525 2.986 3.126 2.682 1.580 4.511 1.697 phosphoenolpyruvate 1.730 2.627 2.030 3.029 2.534 4.052 3.928 2.680 2.912 3.591 3.104 2.656 1.861 0.483 3.945 2.936 2.092 1.589 4.510 4.654 1.114 0.000 3.614 0.000 0.000 0.262 0.000 2.838 0.000 0.000 0.800 0.000 1.065 1.893 0.000 ribose-5-P or xylulose 5-P 3.855 4.306 4.491 5.632 5.108 6.445 7.472 7.489 3.897 4.936 4.451 5.353 3.148 3.484 5.537 4.080 3.010 2.485 6.521 4.744 4.790 6.988 12.019 9.300 7.489 20.849 13.482 20.206 9.020 6.492 8.567 21.967 33.785 33.485 15.256 sedoheptulose 7-phosphate 4.993 4.183 6.388 6.789 6.442 7.897 9.905 8.411 3.811 6.462 6.971 6.351 4.196 6.299 5.541 6.579 3.679 3.743 6.229 5.017 1.568 3.247 3.842 3.714 2.547 3.470 3.755 3.881 2.627 2.262 2.452 3.392 3.922 5.573 3.792 sucrose 9.833 7.591 9.769 12.288 12.304 8.942 10.852 10.081 5.119 8.029 9.933 22.469 6.533 10.809 11.440 11.013 4.731 5.354 8.065 6.548 0.307 5.713 4.336 7.291 6.745 5.010 7.888 6.171 3.719 3.294 6.014 6.229 5.676 10.115 5.968 MS_METABOLITE_DATA_END #METABOLITES METABOLITES_START metabolite_name PubChem CID 2 or 3-phosphoglycerate 724 6-phosphogluconate 91493 Acetyl-CoA 444493 ADP 6022 AMP 6083 ATP 5957 citrate or isocitrate 311 erythrose 4-phosphate 122357 glucose 6-P or fructose-6-P 5958 FAD 46906035 fructose 1,6-bisphosphate 21125049 malate 525 NAD 15938971 NADH 439153 NADP 15938972 NADPH 22833512 phosphoenolpyruvate 1005 ribose-5-P or xylulose 5-P 77982 sedoheptulose 7-phosphate 165007 sucrose 5988 METABOLITES_END #END