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 Rv1749c/-:

update plot	correlation	link to info on gene
Rv1526c/-	(cc=0.5462)	info on Rv1526c/-
Rv3213c/-	(cc=0.5165)	info on Rv3213c/-
Rv3429/PPE59	(cc=0.5102)	info on Rv3429/PPE59
Rv1583c/-	(cc=0.5057)	info on Rv1583c/-
Rv0028/-	(cc=0.5054)	info on Rv0028/-
Rv0042c/-	(cc=0.4944)	info on Rv0042c/-
Rv3217c/-	(cc=0.4881)	info on Rv3217c/-
Rv2237/-	(cc=0.4811)	info on Rv2237/-
Rv1981c/nrdF1	(cc=0.4701)	info on Rv1981c/nrdF1
Rv0432/sodC	(cc=0.47)	info on Rv0432/sodC

Correlation of Rv1749c/- with Rv1526c/-

Normalized LFCs for Rv1749c/-:
(description and provenance of datasets)

	Rv1749c/-	Rv1526c/-
Fe_supp_jason_reseq	0.218	0.082
low_pH_jason_reseq	0.11	0.043
NO_jason_reseq	0.278	0.331
B6_jason_reseq	-0.818	-2.248
MHCII_jason_reseq	-0.357	-1.614
Isoniazid02	-0.445	0.047
Rifampicin4	-0.542	-0.325
Ethambutol3	-0.158	-0.212
Meropenem3	0.097	-0.165
Vancomycin16	-0.366	-0.133
Rv2680_day32	-1.062	-0.548
H37Rv_KO_MarP	-0.278	1.37
hypoxia_3wks	-0.666	-0.558
hypoxia_6wks	-0.714	0.0
glycerol	-1.006	0.243
cholesterol	-0.46	-0.038
AJ	-0.05	0.225
Bibs02	-0.378	-0.415
Bibs02c	-0.139	0.344
BL6	1.067	2.032
BL6a	0.242	1.277
BXD01	0.192	1.115
BXD010	0.787	1.082
BXD011	0.486	2.02
BXD03	-0.291	1.063
BXD04	-0.064	0.426
BXD05	0.642	1.058
BXD06	0.111	0.967
BXD07	0.57	1.868
BXD08	0.547	0.575
BXD09	0.268	1.249
CAST	-0.118	0.707
CCcont	0.844	1.423
DS01	0.149	0.633
DS02	0.334	0.748
DS04	0.537	0.402
DS0c	0.223	-0.295
GP01	1.649	0.727
GP02	0.6	1.017
GP0c	1.255	1.754
NOD	0.094	1.154
NZO	-0.276	0.1
PWK	-0.207	-0.156
H37Rv_KO_CtpC	-0.791	1.462
H37Rv_KO_CtpD	0.967	1.973
H37Rv_KO_Rv1272	-0.149	2.07
H37Rv_KO_SugABC	1.05	1.981
H37Rv_KO_MbtN	-0.061	0.479
Trans05	0.913	1.657
macrophage_unactivated	-0.196	0.71
IL1	-0.43	0.095
Rapamycin	-0.301	0.648
Tcell	-0.029	0.909
GMCSF	0.327	0.594
IFNab	0.178	0.239
IFNg	0.024	1.056
IFNg_GMCSF1	0.795	0.05
Rv1432_day32	0.314	-0.87
Rv1565c_day32	-2.443	-0.291
secA2_input	0.36	-0.482
delta_Rv3594	0.45	0.895
delta_Rv3717	-0.011	0.029
delta_Rv3811	0.109	1.17
delta_Rv0954	0.205	0.652
PonA1	0.749	1.392
EccD1_KO	-0.118	0.835
EspI_KO	-0.06	0.967
PE35_KO	-0.528	0.989
PPE68_KO	-0.378	0.95
glycerol2	0.668	0.376
lignocerate	1.269	1.333
oleate	-0.123	-1.157
phosphatidylcholine	0.859	0.758
acetate	1.322	1.403
glucAc	1.325	1.533
Rv0950ko	0.289	-0.265
Rv1096ko	-0.642	-0.407
Rv3684ko	-1.002	-0.704
delta_otsA_trehalose	0.706	1.158