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 Rv1033c/trcR:

update plot	correlation	link to info on gene
Rv1429/-	(cc=0.5261)	info on Rv1429/-
Rv3520c/-	(cc=0.5121)	info on Rv3520c/-
Rv1163/narJ	(cc=0.4917)	info on Rv1163/narJ
Rv0886/fprB	(cc=0.4617)	info on Rv0886/fprB
Rv3766/-	(cc=0.4611)	info on Rv3766/-
Rv1646/PE17	(cc=0.4485)	info on Rv1646/PE17
Rv0634c/-	(cc=0.4459)	info on Rv0634c/-
Rv3056/dinP	(cc=0.4436)	info on Rv3056/dinP
Rv3322c/-	(cc=0.4433)	info on Rv3322c/-
Rv3295/-	(cc=0.4414)	info on Rv3295/-

Correlation of Rv1033c/trcR with Rv1646/PE17

Normalized LFCs for Rv1033c/trcR:
(description and provenance of datasets)

	Rv1033c/trcR	Rv1646/PE17
Fe_supp_jason_reseq	0.638	0.358
low_pH_jason_reseq	-0.097	-0.348
NO_jason_reseq	0.827	0.181
B6_jason_reseq	0.15	0.787
MHCII_jason_reseq	0.557	0.025
Isoniazid02	-0.096	0.661
Rifampicin4	-0.219	0.439
Ethambutol3	-0.092	0.48
Meropenem3	-0.151	-0.279
Vancomycin16	0.0	-0.167
Rv2680_day32	-0.043	0.621
H37Rv_KO_MarP	0.391	-0.195
hypoxia_3wks	-0.108	0.267
hypoxia_6wks	-0.931	-0.654
glycerol	0.199	0.329
cholesterol	0.877	0.325
AJ	1.103	0.948
Bibs02	0.246	0.13
Bibs02c	0.746	0.606
BL6	-0.694	-0.783
BL6a	0.474	0.445
BXD01	-0.088	0.031
BXD010	-0.299	-0.225
BXD011	-0.165	-0.667
BXD03	0.296	-0.788
BXD04	0.273	0.394
BXD05	0.054	-0.054
BXD06	-0.392	-0.508
BXD07	-0.066	-0.498
BXD08	0.068	0.082
BXD09	0.004	-0.457
CAST	-0.339	1.018
CCcont	0.168	-0.333
DS01	0.45	0.631
DS02	0.25	0.597
DS04	-0.271	0.396
DS0c	0.231	1.196
GP01	-0.487	0.043
GP02	0.251	0.312
GP0c	-0.201	0.025
NOD	0.356	0.765
NZO	1.273	0.525
PWK	-0.567	0.479
H37Rv_KO_CtpC	-0.292	0.071
H37Rv_KO_CtpD	-0.036	-0.623
H37Rv_KO_Rv1272	-0.34	-0.306
H37Rv_KO_SugABC	0.324	-0.135
H37Rv_KO_MbtN	-0.824	0.468
Trans05	-0.804	-0.072
macrophage_unactivated	0.114	-0.729
IL1	-0.362	-1.103
Rapamycin	-0.028	-1.264
Tcell	-0.196	-0.026
GMCSF	-0.533	-0.855
IFNab	-0.565	-1.403
IFNg	-0.783	-1.213
IFNg_GMCSF1	0.085	-0.698
Rv1432_day32	0.0	-0.339
Rv1565c_day32	0.332	-0.488
secA2_input	-0.535	-0.067
delta_Rv3594	0.236	0.219
delta_Rv3717	-0.549	-0.447
delta_Rv3811	-0.361	0.089
delta_Rv0954	0.336	-0.167
PonA1	0.04	0.194
EccD1_KO	0.059	0.49
EspI_KO	0.662	0.351
PE35_KO	0.309	0.397
PPE68_KO	0.538	0.873
glycerol2	0.996	0.573
lignocerate	0.654	0.32
oleate	0.936	0.763
phosphatidylcholine	0.766	0.882
acetate	-0.238	-0.253
glucAc	0.267	-0.363
Rv0950ko	0.814	0.606
Rv1096ko	0.374	-0.817
Rv3684ko	0.262	-0.321
delta_otsA_trehalose	0.278	-1.123