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 Rv0654/-:

update plot	correlation	link to info on gene
Rv2590/fadD9	(cc=0.6053)	info on Rv2590/fadD9
Rv2495c/bkdC	(cc=0.5864)	info on Rv2495c/bkdC
Rv2770c/PPE44	(cc=0.5132)	info on Rv2770c/PPE44
Rv1844c/gnd1	(cc=0.5072)	info on Rv1844c/gnd1
Rv3440c/-	(cc=0.4989)	info on Rv3440c/-
Rv3558/PPE64	(cc=0.4858)	info on Rv3558/PPE64
Rv0222/echA1	(cc=0.4802)	info on Rv0222/echA1
Rv0826/-	(cc=0.4795)	info on Rv0826/-
Rv0281/-	(cc=0.4727)	info on Rv0281/-
Rv2579/dhaA	(cc=0.4699)	info on Rv2579/dhaA

Correlation of Rv0654/- with Rv0826/-

Normalized LFCs for Rv0654/-:
(description and provenance of datasets)

	Rv0654/-	Rv0826/-
Fe_supp_jason_reseq	-1.487	-0.48
low_pH_jason_reseq	-2.16	-1.4
NO_jason_reseq	0.706	0.845
B6_jason_reseq	-0.841	0.127
MHCII_jason_reseq	-0.807	0.272
Isoniazid02	0.458	0.013
Rifampicin4	-0.263	-0.168
Ethambutol3	1.187	-0.011
Meropenem3	0.234	0.061
Vancomycin16	-0.308	-0.154
Rv2680_day32	0.07	1.381
H37Rv_KO_MarP	0.114	0.161
hypoxia_3wks	-0.144	0.0
hypoxia_6wks	0.169	0.038
glycerol	-0.361	-0.696
cholesterol	-0.111	-0.232
AJ	0.435	0.35
Bibs02	0.122	0.339
Bibs02c	0.426	-0.118
BL6	0.212	0.35
BL6a	-0.095	-0.267
BXD01	0.139	0.556
BXD010	-0.658	0.217
BXD011	0.296	-0.054
BXD03	-0.278	-0.116
BXD04	0.053	0.293
BXD05	-0.428	0.171
BXD06	-0.155	0.29
BXD07	-0.152	-0.027
BXD08	0.054	0.383
BXD09	-0.216	-0.039
CAST	0.309	0.075
CCcont	-0.22	-0.029
DS01	0.327	0.222
DS02	0.249	0.348
DS04	0.627	0.631
DS0c	0.547	-0.104
GP01	0.208	0.061
GP02	0.613	0.156
GP0c	0.129	-0.147
NOD	0.693	-0.037
NZO	0.081	0.538
PWK	0.08	0.585
H37Rv_KO_CtpC	-0.213	0.112
H37Rv_KO_CtpD	0.051	-0.155
H37Rv_KO_Rv1272	0.049	0.09
H37Rv_KO_SugABC	0.384	0.121
H37Rv_KO_MbtN	0.231	0.803
Trans05	-0.465	0.704
macrophage_unactivated	0.391	0.388
IL1	0.297	-0.071
Rapamycin	0.319	-0.316
Tcell	-0.456	0.3
GMCSF	0.684	0.335
IFNab	-0.027	-0.532
IFNg	0.425	0.126
IFNg_GMCSF1	0.277	0.902
Rv1432_day32	0.489	1.446
Rv1565c_day32	-0.024	0.074
secA2_input	0.352	0.404
delta_Rv3594	-0.148	0.119
delta_Rv3717	-0.277	0.554
delta_Rv3811	-0.058	0.306
delta_Rv0954	0.318	0.328
PonA1	-0.373	-0.304
EccD1_KO	0.151	-0.257
EspI_KO	-0.183	0.536
PE35_KO	-0.694	-0.615
PPE68_KO	-0.761	-0.656
glycerol2	0.773	-0.015
lignocerate	0.561	0.179
oleate	0.851	0.213
phosphatidylcholine	0.664	0.262
acetate	-0.351	-0.025
glucAc	-0.288	-0.139
Rv0950ko	0.627	0.51
Rv1096ko	0.715	0.73
Rv3684ko	0.413	1.035
delta_otsA_trehalose	-0.301	-0.544