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 Rv0960/vapC9:

update plot	correlation	link to info on gene
Rv1809/PPE33	(cc=0.5268)	info on Rv1809/PPE33
Rv3238c/-	(cc=0.4467)	info on Rv3238c/-
Rv1591/-	(cc=0.4419)	info on Rv1591/-
Rv2590/fadD9	(cc=0.4385)	info on Rv2590/fadD9
Rv3235/-	(cc=0.427)	info on Rv3235/-
Rv0915c/PPE14	(cc=0.4136)	info on Rv0915c/PPE14
Rv2557/-	(cc=0.4125)	info on Rv2557/-
Rv2024c/-	(cc=0.4118)	info on Rv2024c/-
Rv3736/-	(cc=0.4084)	info on Rv3736/-
Rv3290c/lat	(cc=0.3999)	info on Rv3290c/lat

Correlation of Rv0960/vapC9 with Rv3290c/lat

Normalized LFCs for Rv0960/vapC9:
(description and provenance of datasets)

	Rv0960/vapC9	Rv3290c/lat
Fe_supp_jason_reseq	-1.844	-0.679
low_pH_jason_reseq	-0.457	-0.942
NO_jason_reseq	-0.362	-0.47
B6_jason_reseq	-1.349	-1.678
MHCII_jason_reseq	-0.342	-0.427
Isoniazid02	0.031	0.421
Rifampicin4	0.95	-0.133
Ethambutol3	0.303	1.593
Meropenem3	1.523	0.04
Vancomycin16	0.135	0.175
Rv2680_day32	-0.052	-0.102
H37Rv_KO_MarP	0.395	0.248
hypoxia_3wks	-0.49	0.112
hypoxia_6wks	-0.376	0.226
glycerol	-0.761	-0.506
cholesterol	0.029	0.095
AJ	0.592	0.748
Bibs02	1.091	-0.201
Bibs02c	-0.058	-0.561
BL6	-0.331	-0.107
BL6a	0.04	-0.278
BXD01	-0.224	0.263
BXD010	-0.189	0.352
BXD011	-0.79	-0.173
BXD03	0.843	0.283
BXD04	0.776	0.36
BXD05	-0.646	-0.306
BXD06	0.156	-0.044
BXD07	0.074	0.254
BXD08	0.139	0.223
BXD09	0.232	0.185
CAST	-0.609	-0.524
CCcont	-0.162	0.274
DS01	0.498	0.094
DS02	0.173	-0.532
DS04	0.627	-0.814
DS0c	0.588	0.019
GP01	0.83	0.499
GP02	1.002	1.01
GP0c	-0.045	0.527
NOD	-0.278	-0.158
NZO	-1.74	-0.399
PWK	-0.818	0.078
H37Rv_KO_CtpC	0.033	0.788
H37Rv_KO_CtpD	0.554	0.723
H37Rv_KO_Rv1272	-0.451	-0.818
H37Rv_KO_SugABC	1.658	0.583
H37Rv_KO_MbtN	1.095	0.987
Trans05	-0.467	-0.275
macrophage_unactivated	0.455	0.167
IL1	0.899	0.071
Rapamycin	0.663	0.252
Tcell	0.469	-0.476
GMCSF	0.85	-0.28
IFNab	0.683	-0.036
IFNg	-0.257	0.016
IFNg_GMCSF1	1.612	0.151
Rv1432_day32	0.489	0.175
Rv1565c_day32	-0.325	1.579
secA2_input	-0.263	0.265
delta_Rv3594	-0.665	0.151
delta_Rv3717	0.17	-0.474
delta_Rv3811	-0.913	0.181
delta_Rv0954	-0.636	0.213
PonA1	0.103	0.141
EccD1_KO	0.434	0.451
EspI_KO	0.961	-0.014
PE35_KO	1.103	0.242
PPE68_KO	0.761	0.102
glycerol2	0.993	0.681
lignocerate	0.477	0.731
oleate	0.978	0.515
phosphatidylcholine	0.767	0.889
acetate	-0.452	0.0
glucAc	-0.717	0.081
Rv0950ko	0.473	-0.1
Rv1096ko	0.371	0.377
Rv3684ko	1.117	-0.239
delta_otsA_trehalose	0.725	0.286