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 Rv3766/-:

update plot	correlation	link to info on gene
Rv3607c/folB	(cc=0.5235)	info on Rv3607c/folB
Rv3295/-	(cc=0.507)	info on Rv3295/-
Rv0755c/PPE12	(cc=0.4889)	info on Rv0755c/PPE12
Rv1033c/trcR	(cc=0.4611)	info on Rv1033c/trcR
Rv1646/PE17	(cc=0.4608)	info on Rv1646/PE17
Rv2332/mez	(cc=0.4538)	info on Rv2332/mez
Rv3749c/-	(cc=0.4486)	info on Rv3749c/-
Rv1087A/-	(cc=0.4465)	info on Rv1087A/-
Rv1041c/-	(cc=0.438)	info on Rv1041c/-
Rv3018c/PPE46	(cc=0.4327)	info on Rv3018c/PPE46

Correlation of Rv3766/- with Rv1033c/trcR

Normalized LFCs for Rv3766/-:
(description and provenance of datasets)

	Rv3766/-	Rv1033c/trcR
Fe_supp_jason_reseq	1.023	0.638
low_pH_jason_reseq	-0.11	-0.097
NO_jason_reseq	-0.042	0.827
B6_jason_reseq	0.625	0.15
MHCII_jason_reseq	2.035	0.557
Isoniazid02	0.402	-0.096
Rifampicin4	0.412	-0.219
Ethambutol3	0.185	-0.092
Meropenem3	0.056	-0.151
Vancomycin16	-0.085	0.0
Rv2680_day32	1.218	-0.043
H37Rv_KO_MarP	0.343	0.391
hypoxia_3wks	-0.319	-0.108
hypoxia_6wks	-0.345	-0.931
glycerol	-0.192	0.199
cholesterol	0.302	0.877
AJ	1.839	1.103
Bibs02	0.527	0.246
Bibs02c	-0.317	0.746
BL6	-1.424	-0.694
BL6a	0.716	0.474
BXD01	0.644	-0.088
BXD010	0.634	-0.299
BXD011	-0.149	-0.165
BXD03	0.178	0.296
BXD04	1.352	0.273
BXD05	0.605	0.054
BXD06	0.933	-0.392
BXD07	0.301	-0.066
BXD08	0.3	0.068
BXD09	1.073	0.004
CAST	1.126	-0.339
CCcont	-1.082	0.168
DS01	0.57	0.45
DS02	0.0	0.25
DS04	0.603	-0.271
DS0c	0.416	0.231
GP01	-0.485	-0.487
GP02	-0.672	0.251
GP0c	-0.891	-0.201
NOD	2.341	0.356
NZO	1.821	1.273
PWK	1.113	-0.567
H37Rv_KO_CtpC	0.884	-0.292
H37Rv_KO_CtpD	1.459	-0.036
H37Rv_KO_Rv1272	0.578	-0.34
H37Rv_KO_SugABC	0.358	0.324
H37Rv_KO_MbtN	-0.789	-0.824
Trans05	-0.259	-0.804
macrophage_unactivated	-0.988	0.114
IL1	-0.771	-0.362
Rapamycin	-1.571	-0.028
Tcell	-0.482	-0.196
GMCSF	-0.549	-0.533
IFNab	-1.587	-0.565
IFNg	-1.269	-0.783
IFNg_GMCSF1	-0.496	0.085
Rv1432_day32	-0.257	0.0
Rv1565c_day32	2.072	0.332
secA2_input	0.067	-0.535
delta_Rv3594	0.439	0.236
delta_Rv3717	0.409	-0.549
delta_Rv3811	0.115	-0.361
delta_Rv0954	0.992	0.336
PonA1	-0.485	0.04
EccD1_KO	1.605	0.059
EspI_KO	2.878	0.662
PE35_KO	-2.526	0.309
PPE68_KO	1.945	0.538
glycerol2	1.666	0.996
lignocerate	1.218	0.654
oleate	0.768	0.936
phosphatidylcholine	1.34	0.766
acetate	-0.69	-0.238
glucAc	0.467	0.267
Rv0950ko	0.066	0.814
Rv1096ko	0.317	0.374
Rv3684ko	0.878	0.262
delta_otsA_trehalose	0.05	0.278