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 Rv1881c/lppE:

update plot	correlation	link to info on gene
Rv2355/-	(cc=0.4696)	info on Rv2355/-
Rv2116/lppK	(cc=0.4552)	info on Rv2116/lppK
Rv0755A/-	(cc=0.4444)	info on Rv0755A/-
Rv0148/-	(cc=0.4348)	info on Rv0148/-
Rv1424c/-	(cc=0.4301)	info on Rv1424c/-
Rv3116/moeB2	(cc=0.4205)	info on Rv3116/moeB2
Rv1984c/cfp21	(cc=0.412)	info on Rv1984c/cfp21
Rv1917c/PPE34	(cc=0.4107)	info on Rv1917c/PPE34
Rv2649/-	(cc=0.4094)	info on Rv2649/-
Rv0796/-	(cc=0.399)	info on Rv0796/-

Correlation of Rv1881c/lppE with Rv2355/-

Normalized LFCs for Rv1881c/lppE:
(description and provenance of datasets)

	Rv1881c/lppE	Rv2355/-
Fe_supp_jason_reseq	0.23	0.044
low_pH_jason_reseq	-0.739	-0.564
NO_jason_reseq	0.0	0.158
B6_jason_reseq	0.018	-0.298
MHCII_jason_reseq	0.528	0.054
Isoniazid02	0.298	0.047
Rifampicin4	0.593	1.018
Ethambutol3	-0.058	0.416
Meropenem3	-0.025	-0.135
Vancomycin16	0.708	0.013
Rv2680_day32	0.253	-0.084
H37Rv_KO_MarP	-0.24	-0.285
hypoxia_3wks	-0.116	0.419
hypoxia_6wks	0.271	0.125
glycerol	-1.024	-0.866
cholesterol	-1.087	-0.016
AJ	0.109	1.197
Bibs02	-0.056	1.068
Bibs02c	0.671	1.675
BL6	0.769	0.217
BL6a	0.73	1.072
BXD01	0.08	0.643
BXD010	0.309	0.786
BXD011	0.105	0.752
BXD03	-0.148	0.715
BXD04	0.089	0.455
BXD05	-0.165	0.947
BXD06	-0.076	0.431
BXD07	0.099	0.655
BXD08	0.176	0.538
BXD09	-0.154	0.65
CAST	0.058	1.089
CCcont	-0.279	0.177
DS01	0.666	0.972
DS02	1.134	1.007
DS04	0.795	1.317
DS0c	0.709	1.042
GP01	0.461	1.034
GP02	0.737	1.191
GP0c	0.615	0.53
NOD	0.441	1.318
NZO	0.397	0.984
PWK	-0.175	1.098
H37Rv_KO_CtpC	-0.362	0.752
H37Rv_KO_CtpD	0.037	0.953
H37Rv_KO_Rv1272	0.061	0.57
H37Rv_KO_SugABC	0.365	1.016
H37Rv_KO_MbtN	0.737	0.685
Trans05	0.423	0.851
macrophage_unactivated	0.032	-0.59
IL1	-0.03	-0.306
Rapamycin	-0.19	-0.335
Tcell	-0.202	-1.017
GMCSF	0.702	-0.272
IFNab	-0.091	-0.729
IFNg	0.094	-0.428
IFNg_GMCSF1	0.094	-0.226
Rv1432_day32	-0.536	0.492
Rv1565c_day32	0.54	0.278
secA2_input	0.097	-0.315
delta_Rv3594	0.09	-0.153
delta_Rv3717	-0.395	-0.344
delta_Rv3811	0.364	-0.116
delta_Rv0954	0.455	0.429
PonA1	0.102	0.0
EccD1_KO	0.016	0.214
EspI_KO	0.374	0.676
PE35_KO	-0.114	0.79
PPE68_KO	0.035	0.464
glycerol2	-0.083	-0.787
lignocerate	-0.626	-0.553
oleate	0.318	-0.871
phosphatidylcholine	-0.088	-0.774
acetate	-0.504	-0.321
glucAc	-0.442	-0.055
Rv0950ko	-0.38	0.166
Rv1096ko	-0.992	-0.018
Rv3684ko	-1.205	-0.38
delta_otsA_trehalose	-1.649	-0.173