TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1921c/lppF:

update plot	correlation	link to info on gene
Rv3538/-	(cc=0.489)	info on Rv3538/-
Rv1866/-	(cc=0.4783)	info on Rv1866/-
Rv1182/papA3	(cc=0.469)	info on Rv1182/papA3
Rv1676/-	(cc=0.4609)	info on Rv1676/-
Rv1632c/-	(cc=0.4435)	info on Rv1632c/-
Rv2105/-	(cc=0.4316)	info on Rv2105/-
Rv1115/-	(cc=0.4269)	info on Rv1115/-
Rv3335c/-	(cc=0.4265)	info on Rv3335c/-
Rv1394c/cyp132	(cc=0.4197)	info on Rv1394c/cyp132
Rv2015c/-	(cc=0.4174)	info on Rv2015c/-

Correlation of Rv1921c/lppF with Rv2105/-

Normalized LFCs for Rv1921c/lppF:
(description and provenance of datasets)

	Rv1921c/lppF	Rv2105/-
Fe_supp_jason_reseq	-0.055	0.665
low_pH_jason_reseq	1.548	1.8
NO_jason_reseq	-0.11	0.139
B6_jason_reseq	0.649	0.283
MHCII_jason_reseq	0.378	0.13
Isoniazid02	0.457	0.672
Rifampicin4	0.1	1.237
Ethambutol3	1.023	1.484
Meropenem3	0.158	-0.143
Vancomycin16	-0.241	0.533
Rv2680_day32	0.438	-0.056
H37Rv_KO_MarP	0.298	-0.498
hypoxia_3wks	0.14	0.291
hypoxia_6wks	0.459	-0.173
glycerol	0.086	-0.626
cholesterol	-0.269	0.061
AJ	0.308	1.341
Bibs02	0.017	0.293
Bibs02c	0.303	0.906
BL6	0.036	-0.024
BL6a	-0.029	0.428
BXD01	0.161	0.148
BXD010	-0.363	0.842
BXD011	-0.267	0.627
BXD03	-0.291	0.354
BXD04	-0.1	0.182
BXD05	0.039	0.766
BXD06	-0.019	0.074
BXD07	0.281	0.341
BXD08	-0.08	0.292
BXD09	-0.159	0.177
CAST	0.152	0.871
CCcont	-0.044	-0.066
DS01	0.332	0.763
DS02	0.306	0.851
DS04	0.028	0.551
DS0c	0.36	1.007
GP01	0.374	0.946
GP02	0.016	1.213
GP0c	0.289	0.379
NOD	0.278	1.092
NZO	0.23	1.332
PWK	0.571	1.509
H37Rv_KO_CtpC	-0.14	0.667
H37Rv_KO_CtpD	0.886	0.122
H37Rv_KO_Rv1272	0.911	0.124
H37Rv_KO_SugABC	-0.429	0.499
H37Rv_KO_MbtN	1.082	0.983
Trans05	0.168	0.856
macrophage_unactivated	-0.543	-0.953
IL1	-0.383	-1.264
Rapamycin	-0.193	-2.102
Tcell	-0.339	-2.085
GMCSF	0.771	-0.547
IFNab	-0.571	-0.747
IFNg	-0.529	-1.481
IFNg_GMCSF1	-0.999	-1.269
Rv1432_day32	0.289	1.387
Rv1565c_day32	-0.071	-0.137
secA2_input	0.083	1.047
delta_Rv3594	0.17	0.439
delta_Rv3717	0.624	-0.091
delta_Rv3811	0.109	-0.283
delta_Rv0954	-0.536	0.15
PonA1	-0.008	-0.396
EccD1_KO	0.155	0.24
EspI_KO	0.456	0.884
PE35_KO	0.484	0.519
PPE68_KO	0.435	0.512
glycerol2	0.57	0.052
lignocerate	0.609	0.396
oleate	0.586	-0.394
phosphatidylcholine	0.668	0.245
acetate	0.078	1.26
glucAc	0.163	1.915
Rv0950ko	0.0	1.01
Rv1096ko	0.06	0.66
Rv3684ko	-0.023	0.305
delta_otsA_trehalose	-0.038	0.185