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 Rv1616/-

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

	Rv0760c/-	Rv1616/-
Fe_supp_jason_reseq	-0.03	-0.396
low_pH_jason_reseq	-0.228	-0.565
NO_jason_reseq	-0.2	0.48
B6_jason_reseq	-0.084	-0.844
MHCII_jason_reseq	-0.074	-0.966
Isoniazid02	0.058	1.371
Rifampicin4	-0.625	1.162
Ethambutol3	-0.083	1.67
Meropenem3	-0.315	1.185
Vancomycin16	-0.18	1.398
Rv2680_day32	0.614	0.079
H37Rv_KO_MarP	-0.58	-1.139
hypoxia_3wks	1.029	1.766
hypoxia_6wks	-0.378	1.775
glycerol	0.116	1.251
cholesterol	-0.861	1.032
AJ	0.341	1.133
Bibs02	0.172	0.539
Bibs02c	0.377	-0.621
BL6	1.024	1.823
BL6a	1.002	1.778
BXD01	0.706	1.536
BXD010	1.072	2.447
BXD011	-0.31	1.72
BXD03	1.342	2.456
BXD04	0.341	1.862
BXD05	1.818	2.644
BXD06	0.306	2.342
BXD07	-0.055	2.289
BXD08	0.896	2.089
BXD09	0.711	2.112
CAST	1.885	1.021
CCcont	0.318	1.046
DS01	-0.245	0.524
DS02	1.679	0.46
DS04	0.475	1.712
DS0c	1.123	1.043
GP01	1.519	1.749
GP02	0.47	1.063
GP0c	0.0	1.472
NOD	0.877	-0.135
NZO	-0.039	1.017
PWK	0.895	1.576
H37Rv_KO_CtpC	1.112	2.035
H37Rv_KO_CtpD	-0.512	0.541
H37Rv_KO_Rv1272	1.987	1.932
H37Rv_KO_SugABC	1.157	1.821
H37Rv_KO_MbtN	0.942	1.227
Trans05	1.943	2.0
macrophage_unactivated	1.222	0.073
IL1	0.89	0.217
Rapamycin	0.485	0.175
Tcell	1.121	0.684
GMCSF	0.544	0.697
IFNab	0.323	1.149
IFNg	1.563	0.783
IFNg_GMCSF1	-0.968	0.449
Rv1432_day32	1.915	0.46
Rv1565c_day32	-0.766	-1.071
secA2_input	-0.131	-0.928
delta_Rv3594	-0.187	-0.578
delta_Rv3717	0.693	-0.642
delta_Rv3811	-0.431	-0.61
delta_Rv0954	0.056	-0.735
PonA1	0.033	0.046
EccD1_KO	2.368	0.418
EspI_KO	0.764	-0.471
PE35_KO	0.86	0.528
PPE68_KO	0.857	0.224
glycerol2	0.178	-0.339
lignocerate	-0.416	-1.159
oleate	0.391	1.606
phosphatidylcholine	-0.154	-0.305
acetate	0.459	-0.788
glucAc	-0.89	-0.999
Rv0950ko	0.507	0.32
Rv1096ko	0.636	-0.347
Rv3684ko	0.157	0.314
delta_otsA_trehalose	-0.876	-1.703