notebook.community

Edit and run 





In [1]:



    


from om import base, settings
from om.components import *
from om.data import *
from om.util import *

from IPython.display import Javascript

session = base.Session()

ged = GeneExpressionData
dged = DifferentialGeneExpressionData
cpge = ChIPPeakGeneExpression



    


















    






/usr/local/Cellar/python/2.7.6/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pandas/io/excel.py:626: UserWarning: Installed openpyxl is not supported at this time. Use >=1.6.1 and <2.0.0.
  .format(openpyxl_compat.start_ver, openpyxl_compat.stop_ver))

SQL Alchemy querying documentation

Gene Expression Data

locus_id gene_name fold_change stddev strain carbon_source nitrogen_source electron_acceptor supplements dataset_type
b0001 thrL 2.1 .012 wt glucose NH4Cl O2 thiamine array_experiment 




In [5]:



    


session.query(ged).filter(ged.gene_name == 'glpK').all()



    


















    
Out[5]:








[Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, anaerobic, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, anaerobic, Strain: delta-arcA, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.01, Condition: glucose, NH4Cl, anaerobic, Strain: delta-arcAfnr, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, anaerobic, Strain: delta-fnr, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, anaerobic, Strain: delta-narL, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, anaerobic, Strain: delta-narLnarP, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, anaerobic, Strain: delta-narP, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, O2, Strain: delta-arcA, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, O2, Strain: delta-arcAfnr, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, O2, Strain: delta-fnr, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, NO3, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, NO3, Strain: delta-narL, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, NO3, Strain: delta-narLnarP, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, NO3, Strain: delta-narP, array_experiment,
 Gene: (b3926, glpK), Value:  9.51, std: 0.21, Condition: acetate, NH4Cl, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  9.24, std: 0.16, Condition: acetate, NH4Cl, O2, Strain: delta-cra, array_experiment,
 Gene: (b3926, glpK), Value:  2.62, std: 0.06, Condition: glucose, NH4Cl, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  7.86, std: 0.09, Condition: glucose, NH4Cl, O2, Strain: delta-crp, array_experiment,
 Gene: (b3926, glpK), Value:  3.56, std: 0.24, Condition: glucose, NH4Cl, O2, Strain: delta-cra, array_experiment,
 Gene: (b3926, glpK), Value:  3.22, std: 0.05, Condition: glucose, NH4Cl, O2, Strain: delta-lrp, array_experiment,
 Gene: (b3926, glpK), Value:  3.02, std: 0.14, Condition: glucose, NH4Cl, O2, Strain: delta-purR, array_experiment,
 Gene: (b3926, glpK), Value:  7.01, std: 0.91, Condition: fructose, NH4Cl, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  9.14, std: 0.14, Condition: fructose, NH4Cl, O2, Strain: delta-crp, array_experiment,
 Gene: (b3926, glpK), Value:  3.21, std: 0.06, Condition: glucose, leucine, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  3.38, std: 0.00, Condition: glucose, leucine, O2, Strain: delta-lrp, array_experiment,
 Gene: (b3926, glpK), Value:  2.48, std: 0.03, Condition: glucose, adenine, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  2.78, std: 0.18, Condition: glucose, adenine, O2, Strain: delta-purR, array_experiment,
 Gene: (b3926, glpK), Value: 126.07, std:10.89, Condition: fructose, NH4Cl, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 444.20, std:42.89, Condition: fructose, NH4Cl, O2, Strain: delta-crp, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 117.22, std:88.52, Condition: glucose, NH4Cl, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 551.12, std:80.99, Condition: glucose, NH4Cl, O2, Strain: delta-crp, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 4568.24, std:4568.24, Condition: glycerol, NH4Cl, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 2835.98, std:685.89, Condition: glycerol, NH4Cl, O2, Strain: Ar3, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 3445.77, std:794.81, Condition: glycerol, NH4Cl, O2, Strain: delAr1, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 2409.39, std:79.20, Condition: glycerol, NH4Cl, O2, Strain: delAr1delAr2, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 5924.43, std:191.23, Condition: glycerol, NH4Cl, O2, Strain: delAr2, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 1622.35, std:52.04, Condition: glycerol, NH4Cl, O2, Strain: delta-crp, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 118.59, std: 7.89, Condition: glucose, NH4Cl, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 102.32, std: 4.85, Condition: glucose, NH4Cl, O2, Strain: delta-fur, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 44.85, std: 0.92, Condition: glucose, NH4Cl, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 64.78, std: 2.95, Condition: glucose, NH4Cl, O2, Strain: delta-fur, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 49.15, std: 5.54, Condition: glucose, cytidine, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 47.09, std: 2.65, Condition: glucose, cytosine, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 47.59, std:12.80, Condition: glucose, glutamine, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 150.36, std:25.22, Condition: acetate, NH4Cl, O2, Strain: bw25113, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 83.81, std:37.37, Condition: fumarate, NH4Cl, O2, Strain: bw25113, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 30.07, std: 3.24, Condition: glucose, NH4Cl, O2, Strain: bw25113, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 75.29, std: 8.51, Condition: pyruvate, NH4Cl, O2, Strain: bw25113, rnaseq_experiment]

















In [11]:



    


session.query(ged).filter(and_(ged.gene_name == 'glpK',
                               ged.carbon_source == 'acetate')).all()



    


















    
Out[11]:








[Gene: (b3926, glpK), Value:  9.51, std: 0.21, Condition: acetate, NH4Cl, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  9.24, std: 0.16, Condition: acetate, NH4Cl, O2, Strain: delta-cra, array_experiment,
 Gene: (b3926, glpK), Value: 150.36, std:25.22, Condition: acetate, NH4Cl, O2, Strain: bw25113, rnaseq_experiment]

















In [12]:



    


session.query(ged).filter(and_(ged.gene_name == 'glpK',
                               ged.carbon_source == 'glucose',
                               ged.strain == 'wt')).all()



    


















    
Out[12]:








[Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, anaerobic, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  2.25, std: 0.00, Condition: glucose, NH4Cl, NO3, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  2.62, std: 0.06, Condition: glucose, NH4Cl, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  3.21, std: 0.06, Condition: glucose, leucine, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value:  2.48, std: 0.03, Condition: glucose, adenine, O2, Strain: wt, array_experiment,
 Gene: (b3926, glpK), Value: 117.22, std:88.52, Condition: glucose, NH4Cl, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 118.59, std: 7.89, Condition: glucose, NH4Cl, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 44.85, std: 0.92, Condition: glucose, NH4Cl, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 49.15, std: 5.54, Condition: glucose, cytidine, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 47.09, std: 2.65, Condition: glucose, cytosine, O2, Strain: wt, rnaseq_experiment,
 Gene: (b3926, glpK), Value: 47.59, std:12.80, Condition: glucose, glutamine, O2, Strain: wt, rnaseq_experiment]

Differential Gene Expression Data

locus_id gene_name fold_change pval strain1 strain2 carbon_source1 carbon_source2 nitrogen_source1 nitrogen_source2 electron_acceptor1 electron_acceptor2
b0001 thrL 2.1 .012 wt wt glucose acetate NH4Cl NH4Cl O2 O2 




In [7]:



    


session.query(dged).filter(or_(dged.gene_name.in_(['sucA','sucB']),
                               dged.).all()



    


















    
Out[7]:








[Gene: (b0726, sucA), bw25113, acetate/fumarate, NH4Cl, O2, Fold Change: -1.06, FDR:  0.11,
 Gene: (b0726, sucA), bw25113, fumarate/acetate, NH4Cl, O2, Fold Change: -1.06, FDR:  0.11,
 Gene: (b0726, sucA), wt, glucose, NH4Cl/cytidine, O2, Fold Change:  1.08, FDR:  0.15,
 Gene: (b0726, sucA), wt, glucose, cytidine/NH4Cl, O2, Fold Change:  1.08, FDR:  0.15,
 Gene: (b0726, sucA), wt, glucose, cytidine/glutamine, O2, Fold Change: -1.10, FDR:  0.12,
 Gene: (b0726, sucA), wt, glucose, glutamine/cytidine, O2, Fold Change: -1.10, FDR:  0.12,
 Gene: (b0726, sucA), wt/delta-crp, fructose, NH4Cl, O2, Fold Change:  2.47, FDR:  0.00,
 Gene: (b0726, sucA), wt, glucose, NH4Cl, O2, Fold Change:  1.88, FDR:  0.02,
 Gene: (b0726, sucA), wt, glucose, NH4Cl, O2, Fold Change:  1.88, FDR:  0.02,
 Gene: (b0726, sucA), delta-fur, glucose, NH4Cl, O2, Fold Change: -1.17, FDR:  0.08,
 Gene: (b0726, sucA), delta-fur, glucose, NH4Cl, O2, Fold Change: -1.17, FDR:  0.08,
 Gene: (b0726, sucA), wt, glucose, cytidine/cytosine, O2, Fold Change: -0.91, FDR:  0.17,
 Gene: (b0726, sucA), wt, glucose, cytosine/cytidine, O2, Fold Change: -0.91, FDR:  0.17,
 Gene: (b0726, sucA), bw25113, fumarate/glucose, NH4Cl, O2, Fold Change: -0.84, FDR:  0.17,
 Gene: (b0726, sucA), bw25113, glucose/fumarate, NH4Cl, O2, Fold Change: -0.84, FDR:  0.17,
 Gene: (b0726, sucA), bw25113, acetate/glucose, NH4Cl, O2, Fold Change: -1.90, FDR:  0.00,
 Gene: (b0726, sucA), bw25113, glucose/acetate, NH4Cl, O2, Fold Change: -1.90, FDR:  0.00,
 Gene: (b0726, sucA), wt/delAr2, glycerol, NH4Cl, O2, Fold Change:  2.50, FDR:  0.00,
 Gene: (b0726, sucA), wt/delAr1delAr2, glycerol, NH4Cl, O2, Fold Change:  0.88, FDR:  0.20,
 Gene: (b0726, sucA), wt/delta-crp, glycerol, NH4Cl, O2, Fold Change:  1.87, FDR:  0.02,
 Gene: (b0726, sucA), wt, fructose/glucose, NH4Cl, O2, Fold Change: -1.78, FDR:  0.03,
 Gene: (b0726, sucA), wt, glucose/fructose, NH4Cl, O2, Fold Change: -1.78, FDR:  0.03,
 Gene: (b0726, sucA), wt, glucose, NH4Cl, O2, Fold Change: -2.26, FDR:  0.00,
 Gene: (b0726, sucA), wt, glucose, NH4Cl, O2, Fold Change: -2.26, FDR:  0.00,
 Gene: (b0726, sucA), delta-crp, glucose/glycerol, NH4Cl, O2, Fold Change: -0.92, FDR:  0.09,
 Gene: (b0726, sucA), delta-crp, glycerol/glucose, NH4Cl, O2, Fold Change: -0.92, FDR:  0.09,
 Gene: (b0726, sucA), bw25113, glucose/pyruvate, NH4Cl, O2, Fold Change:  1.43, FDR:  0.03,
 Gene: (b0726, sucA), bw25113, pyruvate/glucose, NH4Cl, O2, Fold Change:  1.43, FDR:  0.03,
 Gene: (b0726, sucA), delta-crp, fructose/glucose, NH4Cl, O2, Fold Change:  0.67, FDR:  0.20,
 Gene: (b0726, sucA), delta-crp, glucose/fructose, NH4Cl, O2, Fold Change:  0.67, FDR:  0.20,
 Gene: (b0726, sucA), delta-crp, glucose/fructose, NH4Cl, O2, Fold Change:  0.06, FDR:  0.94,
 Gene: (b0726, sucA), delta-crp, fructose/glucose, NH4Cl, O2, Fold Change:  0.06, FDR:  0.94,
 Gene: (b0726, sucA), wt/delta-arcA, glucose, NH4Cl, anaerobic, Fold Change: -0.10, FDR:  0.19,
 Gene: (b0726, sucA), delta-arcA, glucose, NH4Cl, anaerobic/O2, Fold Change: -0.12, FDR:  0.36,
 Gene: (b0726, sucA), delta-arcA, glucose, NH4Cl, O2/anaerobic, Fold Change: -0.12, FDR:  0.36,
 Gene: (b0727, sucB), wt, glucose, NH4Cl/cytidine, O2, Fold Change:  0.97, FDR:  0.16,
 Gene: (b0727, sucB), wt, glucose, cytidine/NH4Cl, O2, Fold Change:  0.97, FDR:  0.16,
 Gene: (b0727, sucB), wt, glucose, cytidine/glutamine, O2, Fold Change: -1.05, FDR:  0.08,
 Gene: (b0727, sucB), wt, glucose, glutamine/cytidine, O2, Fold Change: -1.05, FDR:  0.08,
 Gene: (b0727, sucB), wt/delta-crp, fructose, NH4Cl, O2, Fold Change:  2.38, FDR:  0.00,
 Gene: (b0727, sucB), wt, glucose, NH4Cl, O2, Fold Change:  2.19, FDR:  0.01,
 Gene: (b0727, sucB), wt, glucose, NH4Cl, O2, Fold Change:  2.19, FDR:  0.01,
 Gene: (b0727, sucB), wt/delta-fur, glucose, NH4Cl, O2, Fold Change:  0.92, FDR:  0.15,
 Gene: (b0727, sucB), delta-fur, glucose, NH4Cl, O2, Fold Change: -0.88, FDR:  0.13,
 Gene: (b0727, sucB), delta-fur, glucose, NH4Cl, O2, Fold Change: -0.88, FDR:  0.13,
 Gene: (b0727, sucB), wt, glucose, cytidine/cytosine, O2, Fold Change: -1.05, FDR:  0.08,
 Gene: (b0727, sucB), wt, glucose, cytosine/cytidine, O2, Fold Change: -1.05, FDR:  0.08,
 Gene: (b0727, sucB), bw25113, fumarate/glucose, NH4Cl, O2, Fold Change: -0.72, FDR:  0.25,
 Gene: (b0727, sucB), bw25113, glucose/fumarate, NH4Cl, O2, Fold Change: -0.72, FDR:  0.25,
 Gene: (b0727, sucB), bw25113, acetate/glucose, NH4Cl, O2, Fold Change: -1.30, FDR:  0.05,
 Gene: (b0727, sucB), bw25113, glucose/acetate, NH4Cl, O2, Fold Change: -1.30, FDR:  0.05,
 Gene: (b0727, sucB), wt/delAr2, glycerol, NH4Cl, O2, Fold Change:  1.48, FDR:  0.05,
 Gene: (b0727, sucB), wt/delAr1delAr2, glycerol, NH4Cl, O2, Fold Change:  0.86, FDR:  0.21,
 Gene: (b0727, sucB), wt, glucose/glycerol, NH4Cl, O2, Fold Change:  1.03, FDR:  0.22,
 Gene: (b0727, sucB), wt, glycerol/glucose, NH4Cl, O2, Fold Change:  1.03, FDR:  0.22,
 Gene: (b0727, sucB), wt/delta-crp, glycerol, NH4Cl, O2, Fold Change:  1.85, FDR:  0.02,
 Gene: (b0727, sucB), wt, fructose/glucose, NH4Cl, O2, Fold Change: -1.70, FDR:  0.03,
 Gene: (b0727, sucB), wt, glucose/fructose, NH4Cl, O2, Fold Change: -1.70, FDR:  0.03,
 Gene: (b0727, sucB), wt, glucose, NH4Cl, O2, Fold Change: -1.99, FDR:  0.00,
 Gene: (b0727, sucB), wt, glucose, NH4Cl, O2, Fold Change: -1.99, FDR:  0.00,
 Gene: (b0727, sucB), delta-crp, glucose/glycerol, NH4Cl, O2, Fold Change: -0.76, FDR:  0.13,
 Gene: (b0727, sucB), delta-crp, glycerol/glucose, NH4Cl, O2, Fold Change: -0.76, FDR:  0.13,
 Gene: (b0727, sucB), bw25113, glucose/pyruvate, NH4Cl, O2, Fold Change:  0.85, FDR:  0.15,
 Gene: (b0727, sucB), bw25113, pyruvate/glucose, NH4Cl, O2, Fold Change:  0.85, FDR:  0.15,
 Gene: (b0727, sucB), delta-crp, fructose/glucose, NH4Cl, O2, Fold Change:  0.62, FDR:  0.21,
 Gene: (b0727, sucB), delta-crp, glucose/fructose, NH4Cl, O2, Fold Change:  0.62, FDR:  0.21,
 Gene: (b0727, sucB), delta-crp, glucose/fructose, NH4Cl, O2, Fold Change: -0.06, FDR:  0.34,
 Gene: (b0727, sucB), delta-crp, fructose/glucose, NH4Cl, O2, Fold Change: -0.06, FDR:  0.34,
 Gene: (b0727, sucB), wt/delta-arcA, glucose, NH4Cl, anaerobic, Fold Change: -1.83, FDR:  0.28,
 Gene: (b0727, sucB), delta-arcA, glucose, NH4Cl, anaerobic/O2, Fold Change:  0.36, FDR:  0.19,
 Gene: (b0727, sucB), delta-arcA, glucose, NH4Cl, O2/anaerobic, Fold Change:  0.36, FDR:  0.19]

















In [8]:



    


session.query(dged.value).filter(dged.gene_name.in_(['sucA','sucB'])).all()



    


















    
Out[8]:








[(-1.05668),
 (-1.05668),
 (1.07965),
 (1.07965),
 (-1.10332),
 (-1.10332),
 (2.4661),
 (2.4661),
 (1.87877),
 (1.87877),
 (-1.16853),
 (-1.16853),
 (-0.909772),
 (-0.909772),
 (-0.839486),
 (-0.839486),
 (-1.89617),
 (-1.89617),
 (2.49735),
 (2.49735),
 (0.875101),
 (0.875101),
 (1.8707),
 (1.8707),
 (-1.77703),
 (-1.77703),
 (-2.263),
 (-2.263),
 (-0.915208),
 (-0.915208),
 (1.43034),
 (1.43034),
 (0.674504),
 (0.674504),
 (0.0555931204215137),
 (0.0555931204215137),
 (-0.0963324849803397),
 (-0.0963324849803397),
 (-0.121869437206573),
 (-0.121869437206573),
 (0.968127),
 (0.968127),
 (-1.05049),
 (-1.05049),
 (2.38132),
 (2.38132),
 (2.18729),
 (2.18729),
 (0.920698),
 (0.920698),
 (-0.882855),
 (-0.882855),
 (-1.05183),
 (-1.05183),
 (-0.724741),
 (-0.724741),
 (-1.30119),
 (-1.30119),
 (1.48282),
 (1.48282),
 (0.859946),
 (0.859946),
 (1.02505),
 (1.02505),
 (1.84566),
 (1.84566),
 (-1.69757),
 (-1.69757),
 (-1.98902),
 (-1.98902),
 (-0.755685),
 (-0.755685),
 (0.846023),
 (0.846023),
 (0.618829),
 (0.618829),
 (-0.0637467552658677),
 (-0.0637467552658677),
 (-1.83071300300125),
 (-1.83071300300125),
 (0.364897356589321),
 (0.364897356589321)]

ChIP Peak Gene Expression

locus_id gene_name fold_change pval target leftpos rightpos peak_value strain1 strain2 carbon_source1 nitrogen_source electron_acceptor
b0001 thrL 2.1 .012 ArcA 192990 193015 876.3 wt delta-arcA glucose NH4Cl anaerobic 




In [21]:



    


session.query(cpge).filter(cpge.gene_name.ilike('glp%')).all()



    


















    
Out[21]:








[TF: Crp, Gene: (glpX, b3925),  0.65,  0.23 wt-->delta-crp Condition: fructose, NH4Cl, O2 Peak: 4115765-4115966 value:12806.00,
 TF: Crp, Gene: (glpK, b3926), -1.82,  0.00 wt-->delta-crp Condition: fructose, NH4Cl, O2 Peak: 4115765-4115966 value:12806.00,
 TF: Crp, Gene: (glpX, b3925),  0.89,  0.21 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4115764-4115965 value:4585.00,
 TF: Crp, Gene: (glpX, b3925),  0.89,  0.21 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4116073-4116274 value:14009.00,
 TF: Crp, Gene: (glpX, b3925),  0.89,  0.21 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4115764-4115965 value:17469.00,
 TF: Crp, Gene: (glpX, b3925),  0.89,  0.21 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4115765-4115966 value:6228.00,
 TF: Crp, Gene: (glpK, b3926),  1.49,  0.05 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4115764-4115965 value:4585.00,
 TF: Crp, Gene: (glpK, b3926),  1.49,  0.05 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4116073-4116274 value:14009.00,
 TF: Crp, Gene: (glpK, b3926),  1.49,  0.05 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4115764-4115965 value:17469.00,
 TF: Crp, Gene: (glpK, b3926),  1.49,  0.05 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4115765-4115966 value:6228.00,
 TF: Crp, Gene: (glpF, b3927), -1.52,  0.01 wt-->delta-crp Condition: fructose, NH4Cl, O2 Peak: 4115765-4115966 value:12806.00,
 TF: Crp, Gene: (glpB, b2242),  4.06,  0.23 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350360-2350561 value:15438.80,
 TF: Crp, Gene: (glpB, b2242),  4.06,  0.23 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350274-2350475 value:8230.70,
 TF: Crp, Gene: (glpB, b2242),  4.06,  0.23 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350199-2350400 value:9544.40,
 TF: Crp, Gene: (glpB, b2242),  4.06,  0.23 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350370-2350571 value:13455.50,
 TF: Crp, Gene: (glpB, b2242),  4.06,  0.23 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350378-2350579 value:15475.90,
 TF: Crp, Gene: (glpB, b2242),  4.06,  0.23 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350513-2350714 value:23854.80,
 TF: Crp, Gene: (glpF, b3927),  2.94,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4115764-4115965 value:4585.00,
 TF: Crp, Gene: (glpF, b3927),  2.94,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4116073-4116274 value:14009.00,
 TF: Crp, Gene: (glpF, b3927),  2.94,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4115764-4115965 value:17469.00,
 TF: Crp, Gene: (glpF, b3927),  2.94,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 4115765-4115966 value:6228.00,
 TF: Crp, Gene: (glpQ, b2239),  4.99,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350360-2350561 value:15438.80,
 TF: Crp, Gene: (glpQ, b2239),  4.99,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350274-2350475 value:8230.70,
 TF: Crp, Gene: (glpQ, b2239),  4.99,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350199-2350400 value:9544.40,
 TF: Crp, Gene: (glpQ, b2239),  4.99,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350370-2350571 value:13455.50,
 TF: Crp, Gene: (glpQ, b2239),  4.99,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350378-2350579 value:15475.90,
 TF: Crp, Gene: (glpQ, b2239),  4.99,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350513-2350714 value:23854.80,
 TF: Crp, Gene: (glpT, b2240),  7.11,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350360-2350561 value:15438.80,
 TF: Crp, Gene: (glpT, b2240),  7.11,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350274-2350475 value:8230.70,
 TF: Crp, Gene: (glpT, b2240),  7.11,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350199-2350400 value:9544.40,
 TF: Crp, Gene: (glpT, b2240),  7.11,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350370-2350571 value:13455.50,
 TF: Crp, Gene: (glpT, b2240),  7.11,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350378-2350579 value:15475.90,
 TF: Crp, Gene: (glpT, b2240),  7.11,  0.00 wt-->delta-crp Condition: glycerol, NH4Cl, O2 Peak: 2350513-2350714 value:23854.80]

















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