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 Rv1831/-

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

	Rv0760c/-	Rv1831/-
Fe_supp_jason_reseq	-0.03	-0.275
low_pH_jason_reseq	-0.228	-0.952
NO_jason_reseq	-0.2	-0.68
B6_jason_reseq	-0.084	-1.36
MHCII_jason_reseq	-0.074	-0.162
Isoniazid02	0.058	0.665
Rifampicin4	-0.625	-0.531
Ethambutol3	-0.083	1.136
Meropenem3	-0.315	0.271
Vancomycin16	-0.18	-0.355
Rv2680_day32	0.614	0.69
H37Rv_KO_MarP	-0.58	-0.512
hypoxia_3wks	1.029	0.124
hypoxia_6wks	-0.378	1.021
glycerol	0.116	-0.11
cholesterol	-0.861	0.052
AJ	0.341	-0.613
Bibs02	0.172	-1.674
Bibs02c	0.377	0.349
BL6	1.024	0.796
BL6a	1.002	1.37
BXD01	0.706	2.036
BXD010	1.072	0.407
BXD011	-0.31	1.379
BXD03	1.342	1.217
BXD04	0.341	1.986
BXD05	1.818	1.501
BXD06	0.306	1.635
BXD07	-0.055	1.565
BXD08	0.896	2.417
BXD09	0.711	1.261
CAST	1.885	-0.087
CCcont	0.318	1.331
DS01	-0.245	-0.349
DS02	1.679	-0.487
DS04	0.475	1.148
DS0c	1.123	0.476
GP01	1.519	-0.413
GP02	0.47	1.186
GP0c	0.0	-0.086
NOD	0.877	1.302
NZO	-0.039	-1.05
PWK	0.895	0.198
H37Rv_KO_CtpC	1.112	0.72
H37Rv_KO_CtpD	-0.512	-0.09
H37Rv_KO_Rv1272	1.987	1.759
H37Rv_KO_SugABC	1.157	1.836
H37Rv_KO_MbtN	0.942	1.611
Trans05	1.943	1.252
macrophage_unactivated	1.222	0.568
IL1	0.89	-0.083
Rapamycin	0.485	-0.439
Tcell	1.121	0.091
GMCSF	0.544	0.314
IFNab	0.323	0.689
IFNg	1.563	0.265
IFNg_GMCSF1	-0.968	0.547
Rv1432_day32	1.915	1.313
Rv1565c_day32	-0.766	-0.471
secA2_input	-0.131	-0.25
delta_Rv3594	-0.187	-0.494
delta_Rv3717	0.693	0.323
delta_Rv3811	-0.431	-0.004
delta_Rv0954	0.056	-0.375
PonA1	0.033	-1.199
EccD1_KO	2.368	0.96
EspI_KO	0.764	0.414
PE35_KO	0.86	-0.029
PPE68_KO	0.857	0.106
glycerol2	0.178	-0.263
lignocerate	-0.416	0.145
oleate	0.391	0.424
phosphatidylcholine	-0.154	0.326
acetate	0.459	-0.8
glucAc	-0.89	-0.318
Rv0950ko	0.507	-0.012
Rv1096ko	0.636	-0.546
Rv3684ko	0.157	-0.193
delta_otsA_trehalose	-0.876	-2.555