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 Rv0760c/-:

update plot	correlation	link to info on gene
Rv0932c/pstS2	(cc=0.5309)	info on Rv0932c/pstS2
Rv0130/htdZ	(cc=0.4933)	info on Rv0130/htdZ
Rv2884/-	(cc=0.444)	info on Rv2884/-
Rv1831/-	(cc=0.4256)	info on Rv1831/-
Rv2807/-	(cc=0.4173)	info on Rv2807/-
Rv1616/-	(cc=0.4159)	info on Rv1616/-
Rv3126c/-	(cc=0.4158)	info on Rv3126c/-
Rv2695/-	(cc=0.4158)	info on Rv2695/-
Rv1322/-	(cc=0.4131)	info on Rv1322/-
Rv3689/-	(cc=0.4118)	info on Rv3689/-

Correlation of Rv0760c/- with Rv0932c/pstS2

Normalized LFCs for Rv0760c/-:
(description and provenance of datasets)

	Rv0760c/-	Rv0932c/pstS2
Fe_supp_jason_reseq	-0.03	-0.226
low_pH_jason_reseq	-0.228	0.065
NO_jason_reseq	-0.2	0.315
B6_jason_reseq	-0.084	0.937
MHCII_jason_reseq	-0.074	-0.494
Isoniazid02	0.058	-1.042
Rifampicin4	-0.625	0.485
Ethambutol3	-0.083	-1.279
Meropenem3	-0.315	-1.144
Vancomycin16	-0.18	-0.605
Rv2680_day32	0.614	0.893
H37Rv_KO_MarP	-0.58	-0.707
hypoxia_3wks	1.029	0.152
hypoxia_6wks	-0.378	0.487
glycerol	0.116	-0.097
cholesterol	-0.861	-0.03
AJ	0.341	0.118
Bibs02	0.172	-0.118
Bibs02c	0.377	-0.17
BL6	1.024	0.714
BL6a	1.002	0.664
BXD01	0.706	0.494
BXD010	1.072	0.668
BXD011	-0.31	0.876
BXD03	1.342	0.862
BXD04	0.341	0.896
BXD05	1.818	1.086
BXD06	0.306	0.825
BXD07	-0.055	0.659
BXD08	0.896	1.148
BXD09	0.711	0.715
CAST	1.885	1.051
CCcont	0.318	0.169
DS01	-0.245	0.354
DS02	1.679	0.394
DS04	0.475	0.606
DS0c	1.123	0.539
GP01	1.519	0.278
GP02	0.47	0.279
GP0c	0.0	0.189
NOD	0.877	0.719
NZO	-0.039	0.584
PWK	0.895	1.178
H37Rv_KO_CtpC	1.112	0.138
H37Rv_KO_CtpD	-0.512	0.361
H37Rv_KO_Rv1272	1.987	1.144
H37Rv_KO_SugABC	1.157	0.855
H37Rv_KO_MbtN	0.942	0.752
Trans05	1.943	0.983
macrophage_unactivated	1.222	0.344
IL1	0.89	-0.101
Rapamycin	0.485	-0.071
Tcell	1.121	-0.094
GMCSF	0.544	0.465
IFNab	0.323	-0.193
IFNg	1.563	0.575
IFNg_GMCSF1	-0.968	0.157
Rv1432_day32	1.915	1.05
Rv1565c_day32	-0.766	-0.578
secA2_input	-0.131	0.11
delta_Rv3594	-0.187	0.057
delta_Rv3717	0.693	0.428
delta_Rv3811	-0.431	0.077
delta_Rv0954	0.056	-0.019
PonA1	0.033	0.157
EccD1_KO	2.368	0.464
EspI_KO	0.764	0.784
PE35_KO	0.86	0.239
PPE68_KO	0.857	0.304
glycerol2	0.178	0.44
lignocerate	-0.416	0.168
oleate	0.391	0.225
phosphatidylcholine	-0.154	-0.311
acetate	0.459	0.1
glucAc	-0.89	-0.166
Rv0950ko	0.507	0.036
Rv1096ko	0.636	-0.389
Rv3684ko	0.157	0.02
delta_otsA_trehalose	-0.876	-0.266