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 Rv1267c/embR

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

	Rv1795/eccD5	Rv1267c/embR
Fe_supp_jason_reseq	0.415	-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	5.012	0.683
hypoxia_3wks	0.0	-0.566
hypoxia_6wks	0.0	-0.679
glycerol	4.046	-0.199
cholesterol	1.325	-0.3
AJ	0.0	0.449
Bibs02	0.0	0.045
Bibs02c	1.028	0.917
BL6	0.0	-0.098
BL6a	0.377	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	0.23	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	4.073	1.658
GP02	4.279	2.343
GP0c	5.395	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	0.216	-0.2
delta_Rv3594	0.0	0.792
delta_Rv3717	0.853	0.944
delta_Rv3811	0.0	0.208
delta_Rv0954	2.536	0.699
PonA1	0.0	0.278
EccD1_KO	0.0	1.125
EspI_KO	0.0	0.388
PE35_KO	0.767	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	0.38	0.308
Rv1096ko	0.38	0.715
Rv3684ko	0.0	0.475
delta_otsA_trehalose	0.0	0.858