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 Rv1797/eccE5:

update plot	correlation	link to info on gene
Rv1783/eccC5	(cc=0.9797)	info on Rv1783/eccC5
Rv1782/eccB5	(cc=0.9136)	info on Rv1782/eccB5
Rv1794/-	(cc=0.8868)	info on Rv1794/-
Rv1796/mycP5	(cc=0.8793)	info on Rv1796/mycP5
Rv1795/eccD5	(cc=0.8763)	info on Rv1795/eccD5
Rv0537c/-	(cc=0.4633)	info on Rv0537c/-
Rv1267c/embR	(cc=0.4281)	info on Rv1267c/embR
Rv1063c/-	(cc=0.4231)	info on Rv1063c/-
Rv0538/-	(cc=0.4035)	info on Rv0538/-
Rv1532c/-	(cc=0.3928)	info on Rv1532c/-

Correlation of Rv1797/eccE5 with Rv1267c/embR

Normalized LFCs for Rv1797/eccE5:
(description and provenance of datasets)

	Rv1797/eccE5	Rv1267c/embR
Fe_supp_jason_reseq	0.218	-0.406
low_pH_jason_reseq	0.0	-0.234
NO_jason_reseq	0.0	0.184
B6_jason_reseq	0.0	0.172
MHCII_jason_reseq	0.0	1.059
Isoniazid02	0.0	-0.367
Rifampicin4	0.0	-0.06
Ethambutol3	0.0	-0.291
Meropenem3	0.0	-0.195
Vancomycin16	0.0	-0.369
Rv2680_day32	0.0	-0.344
H37Rv_KO_MarP	6.0	0.683
hypoxia_3wks	0.0	-0.566
hypoxia_6wks	0.0	-0.679
glycerol	0.0	-0.199
cholesterol	0.145	-0.3
AJ	0.0	0.449
Bibs02	0.0	0.045
Bibs02c	0.0	0.917
BL6	0.0	-0.098
BL6a	0.0	0.58
BXD01	0.0	-0.084
BXD010	0.0	0.1
BXD011	0.0	0.1
BXD03	0.0	-0.725
BXD04	0.0	0.77
BXD05	0.0	-0.453
BXD06	0.0	-0.077
BXD07	0.0	0.365
BXD08	0.0	-0.113
BXD09	0.0	0.242
CAST	0.0	0.652
CCcont	0.149	-0.221
DS01	0.0	0.13
DS02	0.0	-0.041
DS04	0.0	0.446
DS0c	0.0	0.207
GP01	3.42	1.658
GP02	3.65	2.343
GP0c	4.084	1.044
NOD	0.0	0.812
NZO	0.0	0.555
PWK	0.0	0.35
H37Rv_KO_CtpC	0.0	-0.386
H37Rv_KO_CtpD	0.0	-0.272
H37Rv_KO_Rv1272	0.0	0.808
H37Rv_KO_SugABC	0.0	-0.342
H37Rv_KO_MbtN	0.0	-0.102
Trans05	0.0	0.54
macrophage_unactivated	0.0	0.395
IL1	0.0	0.486
Rapamycin	0.0	0.068
Tcell	0.0	0.984
GMCSF	0.0	-0.235
IFNab	0.0	-0.828
IFNg	0.0	0.946
IFNg_GMCSF1	0.0	0.694
Rv1432_day32	0.0	0.188
Rv1565c_day32	0.0	0.292
secA2_input	0.0	-0.2
delta_Rv3594	0.0	0.792
delta_Rv3717	0.331	0.944
delta_Rv3811	0.0	0.208
delta_Rv0954	1.196	0.699
PonA1	0.0	0.278
EccD1_KO	0.0	1.125
EspI_KO	-0.394	0.388
PE35_KO	0.0	1.03
PPE68_KO	-0.442	0.518
glycerol2	0.0	0.273
lignocerate	0.0	0.581
oleate	0.0	0.33
phosphatidylcholine	0.0	0.545
acetate	0.0	0.51
glucAc	0.0	0.045
Rv0950ko	0.0	0.308
Rv1096ko	0.38	0.715
Rv3684ko	-0.452	0.475
delta_otsA_trehalose	0.0	0.858