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 Rv2649/-

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

	Rv1881c/lppE	Rv2649/-
Fe_supp_jason_reseq	0.23	-0.259
low_pH_jason_reseq	-0.739	-0.333
NO_jason_reseq	0.0	0.236
B6_jason_reseq	0.018	-0.422
MHCII_jason_reseq	0.528	0.0
Isoniazid02	0.298	0.057
Rifampicin4	0.593	1.075
Ethambutol3	-0.058	0.612
Meropenem3	-0.025	-0.132
Vancomycin16	0.708	0.088
Rv2680_day32	0.253	0.169
H37Rv_KO_MarP	-0.24	-0.157
hypoxia_3wks	-0.116	0.431
hypoxia_6wks	0.271	0.077
glycerol	-1.024	-0.635
cholesterol	-1.087	0.144
AJ	0.109	1.351
Bibs02	-0.056	1.125
Bibs02c	0.671	1.814
BL6	0.769	0.029
BL6a	0.73	0.911
BXD01	0.08	0.613
BXD010	0.309	0.729
BXD011	0.105	0.75
BXD03	-0.148	0.661
BXD04	0.089	0.473
BXD05	-0.165	0.959
BXD06	-0.076	0.423
BXD07	0.099	0.702
BXD08	0.176	0.433
BXD09	-0.154	0.667
CAST	0.058	1.303
CCcont	-0.279	0.009
DS01	0.666	1.042
DS02	1.134	0.901
DS04	0.795	1.143
DS0c	0.709	1.122
GP01	0.461	1.149
GP02	0.737	1.403
GP0c	0.615	0.705
NOD	0.441	1.256
NZO	0.397	1.019
PWK	-0.175	1.162
H37Rv_KO_CtpC	-0.362	0.771
H37Rv_KO_CtpD	0.037	0.903
H37Rv_KO_Rv1272	0.061	0.47
H37Rv_KO_SugABC	0.365	0.757
H37Rv_KO_MbtN	0.737	0.647
Trans05	0.423	0.804
macrophage_unactivated	0.032	-0.865
IL1	-0.03	-0.365
Rapamycin	-0.19	-0.466
Tcell	-0.202	-1.268
GMCSF	0.702	-0.269
IFNab	-0.091	-0.707
IFNg	0.094	-0.347
IFNg_GMCSF1	0.094	-0.148
Rv1432_day32	-0.536	0.533
Rv1565c_day32	0.54	0.13
secA2_input	0.097	-0.337
delta_Rv3594	0.09	-0.121
delta_Rv3717	-0.395	-0.111
delta_Rv3811	0.364	-0.064
delta_Rv0954	0.455	0.457
PonA1	0.102	0.0
EccD1_KO	0.016	0.099
EspI_KO	0.374	0.858
PE35_KO	-0.114	0.75
PPE68_KO	0.035	0.33
glycerol2	-0.083	-0.954
lignocerate	-0.626	-0.756
oleate	0.318	-1.069
phosphatidylcholine	-0.088	-0.828
acetate	-0.504	-0.329
glucAc	-0.442	-0.013
Rv0950ko	-0.38	-0.148
Rv1096ko	-0.992	0.06
Rv3684ko	-1.205	-0.599
delta_otsA_trehalose	-1.649	0.193