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 Rv1981c/nrdF1

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

	Rv1749c/-	Rv1981c/nrdF1
Fe_supp_jason_reseq	0.218	0.204
low_pH_jason_reseq	0.11	-1.022
NO_jason_reseq	0.278	-0.417
B6_jason_reseq	-0.818	0.31
MHCII_jason_reseq	-0.357	0.087
Isoniazid02	-0.445	-0.639
Rifampicin4	-0.542	0.143
Ethambutol3	-0.158	0.064
Meropenem3	0.097	-0.466
Vancomycin16	-0.366	-0.456
Rv2680_day32	-1.062	0.742
H37Rv_KO_MarP	-0.278	-0.333
hypoxia_3wks	-0.666	-0.646
hypoxia_6wks	-0.714	-1.297
glycerol	-1.006	0.089
cholesterol	-0.46	-0.384
AJ	-0.05	-0.012
Bibs02	-0.378	0.468
Bibs02c	-0.139	0.473
BL6	1.067	0.25
BL6a	0.242	0.443
BXD01	0.192	0.283
BXD010	0.787	0.295
BXD011	0.486	0.653
BXD03	-0.291	0.455
BXD04	-0.064	0.492
BXD05	0.642	0.397
BXD06	0.111	0.536
BXD07	0.57	0.277
BXD08	0.547	-0.029
BXD09	0.268	0.417
CAST	-0.118	-0.012
CCcont	0.844	0.321
DS01	0.149	0.301
DS02	0.334	-0.028
DS04	0.537	0.025
DS0c	0.223	0.542
GP01	1.649	0.421
GP02	0.6	0.603
GP0c	1.255	0.365
NOD	0.094	0.667
NZO	-0.276	-0.39
PWK	-0.207	0.036
H37Rv_KO_CtpC	-0.791	0.101
H37Rv_KO_CtpD	0.967	0.44
H37Rv_KO_Rv1272	-0.149	0.588
H37Rv_KO_SugABC	1.05	1.0
H37Rv_KO_MbtN	-0.061	0.046
Trans05	0.913	0.555
macrophage_unactivated	-0.196	0.174
IL1	-0.43	0.294
Rapamycin	-0.301	-0.157
Tcell	-0.029	0.111
GMCSF	0.327	0.269
IFNab	0.178	0.166
IFNg	0.024	0.059
IFNg_GMCSF1	0.795	0.273
Rv1432_day32	0.314	-0.155
Rv1565c_day32	-2.443	-0.878
secA2_input	0.36	-0.427
delta_Rv3594	0.45	-0.049
delta_Rv3717	-0.011	-0.31
delta_Rv3811	0.109	0.012
delta_Rv0954	0.205	0.231
PonA1	0.749	0.359
EccD1_KO	-0.118	0.066
EspI_KO	-0.06	0.103
PE35_KO	-0.528	-0.108
PPE68_KO	-0.378	0.032
glycerol2	0.668	0.965
lignocerate	1.269	0.958
oleate	-0.123	1.048
phosphatidylcholine	0.859	0.957
acetate	1.322	0.258
glucAc	1.325	0.183
Rv0950ko	0.289	0.663
Rv1096ko	-0.642	0.118
Rv3684ko	-1.002	-0.331
delta_otsA_trehalose	0.706	0.71