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 Rv3807c/-:

update plot	correlation	link to info on gene
Rv0541c/-	(cc=0.5901)	info on Rv0541c/-
Rv1512/epiA	(cc=0.5811)	info on Rv1512/epiA
Rv0998/-	(cc=0.555)	info on Rv0998/-
Rv1421/-	(cc=0.5326)	info on Rv1421/-
Rv0092/ctpA	(cc=0.5248)	info on Rv0092/ctpA
Rv3918c/parA	(cc=0.4916)	info on Rv3918c/parA
Rv0545c/pitA	(cc=0.4876)	info on Rv0545c/pitA
Rv2036/-	(cc=0.4866)	info on Rv2036/-
Rv1080c/greA	(cc=0.4743)	info on Rv1080c/greA
Rv2246/kasB	(cc=0.4734)	info on Rv2246/kasB

Correlation of Rv3807c/- with Rv0541c/-

Normalized LFCs for Rv3807c/-:
(description and provenance of datasets)

	Rv3807c/-	Rv0541c/-
Fe_supp_jason_reseq	3.017	0.598
low_pH_jason_reseq	-1.79	0.0
NO_jason_reseq	0.176	0.0
B6_jason_reseq	1.071	0.0
MHCII_jason_reseq	0.977	0.0
Isoniazid02	0.642	0.0
Rifampicin4	-0.29	0.0
Ethambutol3	0.711	0.0
Meropenem3	-0.128	0.0
Vancomycin16	-0.589	0.0
Rv2680_day32	1.294	0.0
H37Rv_KO_MarP	-1.699	-1.683
hypoxia_3wks	2.265	0.0
hypoxia_6wks	1.391	0.0
glycerol	-1.729	0.0
cholesterol	-1.715	0.0
AJ	-2.284	0.0
Bibs02	2.215	0.0
Bibs02c	-0.318	0.0
BL6	-1.706	0.0
BL6a	-0.222	0.0
BXD01	-1.694	0.0
BXD010	0.229	0.0
BXD011	-2.236	0.0
BXD03	-1.678	0.0
BXD04	-1.335	0.0
BXD05	0.374	0.0
BXD06	-1.509	0.0
BXD07	-0.36	0.0
BXD08	-1.999	0.0
BXD09	-0.365	0.0
CAST	-2.486	0.0
CCcont	-1.279	0.525
DS01	-0.265	0.0
DS02	0.663	0.0
DS04	-0.461	0.0
DS0c	1.263	0.0
GP01	2.895	0.0
GP02	0.889	0.0
GP0c	1.86	0.0
NOD	-2.211	0.0
NZO	-1.211	0.0
PWK	-2.676	0.0
H37Rv_KO_CtpC	-1.837	0.0
H37Rv_KO_CtpD	-1.728	0.241
H37Rv_KO_Rv1272	-0.466	0.0
H37Rv_KO_SugABC	-1.649	0.0
H37Rv_KO_MbtN	0.931	0.196
Trans05	0.327	0.0
macrophage_unactivated	-0.855	0.0
IL1	-2.394	0.0
Rapamycin	-1.488	0.0
Tcell	-1.219	0.0
GMCSF	-1.133	0.0
IFNab	2.833	0.0
IFNg	0.609	0.0
IFNg_GMCSF1	-3.274	0.0
Rv1432_day32	-0.819	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-1.061	-1.882
delta_Rv3594	3.295	3.674
delta_Rv3717	3.809	3.71
delta_Rv3811	5.154	4.232
delta_Rv0954	3.545	2.348
PonA1	-1.154	-1.235
EccD1_KO	-1.151	-3.887
EspI_KO	-2.667	-3.066
PE35_KO	-2.981	-2.847
PPE68_KO	-2.857	-2.409
glycerol2	-2.008	0.0
lignocerate	-1.745	0.0
oleate	-2.032	0.0
phosphatidylcholine	-2.007	0.0
acetate	-0.384	0.0
glucAc	-1.481	0.0
Rv0950ko	-2.268	-2.813
Rv1096ko	-2.045	0.302
Rv3684ko	-0.547	0.327
delta_otsA_trehalose	0.366	0.0