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 Rv1795/eccD5:

update plot	correlation	link to info on gene
Rv1796/mycP5	(cc=0.9758)	info on Rv1796/mycP5
Rv1782/eccB5	(cc=0.9506)	info on Rv1782/eccB5
Rv1794/-	(cc=0.9383)	info on Rv1794/-
Rv1783/eccC5	(cc=0.9287)	info on Rv1783/eccC5
Rv1797/eccE5	(cc=0.8763)	info on Rv1797/eccE5
Rv1063c/-	(cc=0.4391)	info on Rv1063c/-
Rv1267c/embR	(cc=0.4194)	info on Rv1267c/embR
Rv3399/-	(cc=0.413)	info on Rv3399/-
Rv0538/-	(cc=0.3979)	info on Rv0538/-
Rv2065/cobH	(cc=0.3972)	info on Rv2065/cobH

Correlation of Rv1795/eccD5 with Rv1794/-

Normalized LFCs for Rv1795/eccD5:
(description and provenance of datasets)

	Rv1795/eccD5	Rv1794/-
Fe_supp_jason_reseq	0.415	0.0
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	0.0	0.0
Rifampicin4	0.0	0.0
Ethambutol3	0.0	0.0
Meropenem3	0.0	0.165
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	5.012	3.988
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	4.046	2.172
cholesterol	1.325	0.398
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	1.028	0.209
BL6	0.0	0.0
BL6a	0.377	0.198
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.127
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.135
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.23	0.0
CCcont	0.149	0.149
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.0
DS0c	0.0	0.0
GP01	4.073	3.849
GP02	4.279	3.34
GP0c	5.395	4.494
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.162
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.0	0.0
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.216	0.0
delta_Rv3594	0.0	-0.211
delta_Rv3717	0.853	0.159
delta_Rv3811	0.0	-0.205
delta_Rv0954	2.536	1.603
PonA1	0.0	-0.159
EccD1_KO	0.0	0.0
EspI_KO	0.0	0.0
PE35_KO	0.767	0.767
PPE68_KO	0.442	0.442
glycerol2	0.0	-0.531
lignocerate	0.0	-0.462
oleate	0.0	-0.537
phosphatidylcholine	0.0	-0.531
acetate	0.0	-0.63
glucAc	0.0	-0.249
Rv0950ko	0.38	-0.302
Rv1096ko	0.38	-1.348
Rv3684ko	0.0	-1.464
delta_otsA_trehalose	0.0	0.0