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 Rv1499/-:

update plot	correlation	link to info on gene
Rv1987/-	(cc=0.5716)	info on Rv1987/-
Rv2544/lppB	(cc=0.5647)	info on Rv2544/lppB
Rv1805c/-	(cc=0.5374)	info on Rv1805c/-
Rv2281/pitB	(cc=0.5036)	info on Rv2281/pitB
Rv2308/-	(cc=0.5025)	info on Rv2308/-
Rv2758c/vapB21	(cc=0.4812)	info on Rv2758c/vapB21
Rv3224B/-	(cc=0.4637)	info on Rv3224B/-
Rv0318c/-	(cc=0.4608)	info on Rv0318c/-
Rv2369c/-	(cc=0.4604)	info on Rv2369c/-
Rv0260c/-	(cc=0.4595)	info on Rv0260c/-

Correlation of Rv1499/- with Rv2281/pitB

Normalized LFCs for Rv1499/-:
(description and provenance of datasets)

	Rv1499/-	Rv2281/pitB
Fe_supp_jason_reseq	1.255	0.223
low_pH_jason_reseq	-0.432	-0.343
NO_jason_reseq	-0.903	0.215
B6_jason_reseq	0.09	0.28
MHCII_jason_reseq	-0.138	-0.784
Isoniazid02	-0.375	-1.67
Rifampicin4	-0.536	0.458
Ethambutol3	-0.331	0.555
Meropenem3	-0.339	-0.641
Vancomycin16	-0.196	-0.584
Rv2680_day32	0.175	0.336
H37Rv_KO_MarP	-0.526	-0.325
hypoxia_3wks	-0.12	-0.191
hypoxia_6wks	0.574	-0.1
glycerol	-1.131	0.171
cholesterol	-0.38	0.215
AJ	0.024	0.482
Bibs02	0.574	0.155
Bibs02c	0.258	0.0
BL6	0.806	0.69
BL6a	-0.225	0.469
BXD01	0.515	0.193
BXD010	0.021	0.456
BXD011	0.388	0.591
BXD03	1.053	-0.234
BXD04	0.749	-0.139
BXD05	0.33	0.28
BXD06	0.402	0.541
BXD07	0.579	0.643
BXD08	0.927	0.952
BXD09	0.752	1.115
CAST	0.325	0.27
CCcont	1.221	0.588
DS01	0.086	0.69
DS02	0.036	0.605
DS04	-0.797	-0.419
DS0c	0.357	-0.614
GP01	-0.725	0.147
GP02	0.852	1.022
GP0c	-0.44	-0.429
NOD	-0.298	0.298
NZO	0.952	0.834
PWK	-0.074	0.068
H37Rv_KO_CtpC	0.984	0.165
H37Rv_KO_CtpD	1.16	0.499
H37Rv_KO_Rv1272	0.512	0.097
H37Rv_KO_SugABC	0.481	0.673
H37Rv_KO_MbtN	0.679	-0.316
Trans05	0.207	0.515
macrophage_unactivated	2.838	0.622
IL1	0.638	0.35
Rapamycin	-0.212	0.052
Tcell	1.14	-0.482
GMCSF	0.908	-0.29
IFNab	0.154	0.051
IFNg	0.556	0.567
IFNg_GMCSF1	0.892	-0.465
Rv1432_day32	0.231	0.231
Rv1565c_day32	0.584	-0.106
secA2_input	-0.061	0.277
delta_Rv3594	-0.286	0.34
delta_Rv3717	-0.909	-0.468
delta_Rv3811	-0.149	-1.184
delta_Rv0954	-0.423	-0.028
PonA1	-0.616	0.299
EccD1_KO	-0.329	-0.164
EspI_KO	-0.471	-0.682
PE35_KO	-0.239	0.14
PPE68_KO	0.211	0.304
glycerol2	1.606	1.481
lignocerate	2.356	2.191
oleate	-0.872	-0.084
phosphatidylcholine	1.756	1.867
acetate	1.081	2.364
glucAc	1.473	2.339
Rv0950ko	0.817	0.066
Rv1096ko	-0.308	0.383
Rv3684ko	-0.334	-0.789
delta_otsA_trehalose	0.256	-2.033