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 Rv1808/PPE32:

update plot	correlation	link to info on gene
Rv1809/PPE33	(cc=0.8132)	info on Rv1809/PPE33
Rv3273/-	(cc=0.5896)	info on Rv3273/-
Rv2314c/-	(cc=0.532)	info on Rv2314c/-
Rv1810/-	(cc=0.5294)	info on Rv1810/-
Rv0867c/rpfA	(cc=0.5228)	info on Rv0867c/rpfA
Rv2545/vapB18	(cc=0.5133)	info on Rv2545/vapB18
Rv1220c/-	(cc=0.4998)	info on Rv1220c/-
Rv0787/-	(cc=0.4911)	info on Rv0787/-
Rv1862/adhA	(cc=0.4905)	info on Rv1862/adhA
Rv2694c/-	(cc=0.4848)	info on Rv2694c/-

Correlation of Rv1808/PPE32 with Rv1809/PPE33

Normalized LFCs for Rv1808/PPE32:
(description and provenance of datasets)

	Rv1808/PPE32	Rv1809/PPE33
Fe_supp_jason_reseq	-0.447	-0.895
low_pH_jason_reseq	-1.273	0.0
NO_jason_reseq	-1.979	-1.79
B6_jason_reseq	-1.203	-2.074
MHCII_jason_reseq	-0.609	-1.223
Isoniazid02	0.406	0.566
Rifampicin4	-0.246	-0.084
Ethambutol3	-0.503	-0.299
Meropenem3	-0.171	0.585
Vancomycin16	0.048	0.22
Rv2680_day32	-0.217	-0.943
H37Rv_KO_MarP	0.164	0.12
hypoxia_3wks	0.315	0.124
hypoxia_6wks	0.269	-0.027
glycerol	1.286	-0.427
cholesterol	1.71	0.34
AJ	-0.61	-0.424
Bibs02	0.768	0.607
Bibs02c	0.584	0.881
BL6	0.839	0.683
BL6a	0.824	0.646
BXD01	-0.11	0.211
BXD010	0.402	0.325
BXD011	0.343	0.089
BXD03	0.536	0.409
BXD04	0.103	0.501
BXD05	0.714	0.892
BXD06	0.561	0.305
BXD07	0.373	0.126
BXD08	0.266	0.141
BXD09	0.308	0.179
CAST	-0.956	-1.098
CCcont	0.894	0.996
DS01	1.244	1.483
DS02	0.896	1.279
DS04	1.204	0.817
DS0c	1.461	1.381
GP01	0.445	0.817
GP02	-0.297	0.135
GP0c	0.413	1.366
NOD	-0.459	-0.389
NZO	-2.123	-2.092
PWK	-0.53	-1.171
H37Rv_KO_CtpC	0.873	0.744
H37Rv_KO_CtpD	0.862	1.382
H37Rv_KO_Rv1272	0.646	1.874
H37Rv_KO_SugABC	1.25	0.592
H37Rv_KO_MbtN	0.747	0.841
Trans05	1.311	1.403
macrophage_unactivated	0.092	0.357
IL1	0.733	1.011
Rapamycin	0.991	1.157
Tcell	0.499	0.414
GMCSF	0.618	1.167
IFNab	1.128	1.067
IFNg	0.398	0.959
IFNg_GMCSF1	0.368	0.811
Rv1432_day32	0.008	-0.395
Rv1565c_day32	-0.581	-0.073
secA2_input	0.139	0.41
delta_Rv3594	-0.286	-0.509
delta_Rv3717	-0.132	-0.24
delta_Rv3811	-0.14	-0.47
delta_Rv0954	-0.336	-0.408
PonA1	-0.766	-0.955
EccD1_KO	0.405	0.934
EspI_KO	0.208	0.87
PE35_KO	0.035	1.035
PPE68_KO	0.368	1.238
glycerol2	1.737	2.092
lignocerate	1.254	0.997
oleate	-0.23	0.084
phosphatidylcholine	1.464	1.793
acetate	0.652	0.424
glucAc	0.587	0.253
Rv0950ko	0.024	-0.015
Rv1096ko	0.081	-0.368
Rv3684ko	-0.187	-0.095
delta_otsA_trehalose	0.025	0.69