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 Rv3392c/cmaA1:

update plot	correlation	link to info on gene
Rv1638A/-	(cc=0.5142)	info on Rv1638A/-
Rv1742/-	(cc=0.4832)	info on Rv1742/-
Rv0866/moaE2	(cc=0.4786)	info on Rv0866/moaE2
Rv2806/-	(cc=0.4722)	info on Rv2806/-
Rv0837c/-	(cc=0.4646)	info on Rv0837c/-
Rv1075c/-	(cc=0.4553)	info on Rv1075c/-
Rv1982A/vapB36	(cc=0.4465)	info on Rv1982A/vapB36
Rv1149/-	(cc=0.4458)	info on Rv1149/-
Rv1773c/-	(cc=0.4398)	info on Rv1773c/-
Rv2966c/-	(cc=0.4394)	info on Rv2966c/-

Correlation of Rv3392c/cmaA1 with Rv2806/-

Normalized LFCs for Rv3392c/cmaA1:
(description and provenance of datasets)

	Rv3392c/cmaA1	Rv2806/-
Fe_supp_jason_reseq	0.373	-0.54
low_pH_jason_reseq	0.783	-1.087
NO_jason_reseq	-1.748	-0.992
B6_jason_reseq	0.085	-0.321
MHCII_jason_reseq	1.089	0.315
Isoniazid02	0.054	-0.589
Rifampicin4	-0.772	-0.495
Ethambutol3	-0.14	-0.754
Meropenem3	0.086	-0.621
Vancomycin16	0.329	-0.045
Rv2680_day32	-0.365	-0.554
H37Rv_KO_MarP	0.689	0.023
hypoxia_3wks	0.319	1.196
hypoxia_6wks	1.244	1.063
glycerol	0.844	0.513
cholesterol	0.07	-1.016
AJ	0.726	1.407
Bibs02	-1.179	0.343
Bibs02c	0.55	-0.808
BL6	-0.731	-0.483
BL6a	0.936	-0.036
BXD01	0.309	1.022
BXD010	-0.206	0.486
BXD011	0.742	0.584
BXD03	0.227	0.325
BXD04	0.208	0.308
BXD05	1.133	0.544
BXD06	0.482	0.394
BXD07	0.725	1.055
BXD08	0.656	0.866
BXD09	0.387	0.482
CAST	-0.462	0.093
CCcont	-0.633	-0.766
DS01	1.237	0.135
DS02	1.267	0.947
DS04	-0.167	0.354
DS0c	0.484	0.418
GP01	-1.899	0.576
GP02	-0.955	0.207
GP0c	-1.78	-0.269
NOD	0.532	-0.449
NZO	-0.481	1.428
PWK	1.124	1.144
H37Rv_KO_CtpC	0.625	0.84
H37Rv_KO_CtpD	0.853	-1.44
H37Rv_KO_Rv1272	-0.745	1.179
H37Rv_KO_SugABC	0.984	0.568
H37Rv_KO_MbtN	1.266	1.216
Trans05	0.456	1.05
macrophage_unactivated	-0.051	0.237
IL1	0.181	-0.208
Rapamycin	0.0	0.307
Tcell	-0.264	0.701
GMCSF	0.784	-0.586
IFNab	0.78	-0.435
IFNg	-0.444	-0.094
IFNg_GMCSF1	-0.578	-0.163
Rv1432_day32	0.394	0.733
Rv1565c_day32	-0.283	-0.539
secA2_input	0.85	-0.218
delta_Rv3594	2.022	2.226
delta_Rv3717	2.085	1.441
delta_Rv3811	2.411	2.28
delta_Rv0954	2.335	1.567
PonA1	1.021	0.925
EccD1_KO	0.47	0.0
EspI_KO	1.075	-0.026
PE35_KO	0.61	0.42
PPE68_KO	1.206	0.637
glycerol2	-0.474	0.205
lignocerate	-0.363	-0.393
oleate	0.0	1.009
phosphatidylcholine	-0.21	0.356
acetate	-0.027	-0.735
glucAc	-1.118	-1.598
Rv0950ko	0.763	0.516
Rv1096ko	0.712	-0.187
Rv3684ko	1.094	0.265
delta_otsA_trehalose	-0.239	-0.492