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 Rv2998/-:

update plot	correlation	link to info on gene
Rv1508A/-	(cc=0.5325)	info on Rv1508A/-
Rv2492/-	(cc=0.5168)	info on Rv2492/-
Rv0691c/-	(cc=0.5138)	info on Rv0691c/-
Rv3138/pflA	(cc=0.5123)	info on Rv3138/pflA
Rv0567/-	(cc=0.4873)	info on Rv0567/-
Rv2310/-	(cc=0.4857)	info on Rv2310/-
Rv1269c/-	(cc=0.4854)	info on Rv1269c/-
Rv2880c/-	(cc=0.4774)	info on Rv2880c/-
Rv0934/pstS1	(cc=0.4497)	info on Rv0934/pstS1
Rv0557/mgtA	(cc=0.4462)	info on Rv0557/mgtA

Correlation of Rv2998/- with Rv0691c/-

Normalized LFCs for Rv2998/-:
(description and provenance of datasets)

	Rv2998/-	Rv0691c/-
Fe_supp_jason_reseq	0.0	0.963
low_pH_jason_reseq	-1.074	0.714
NO_jason_reseq	0.378	0.974
B6_jason_reseq	-0.74	0.013
MHCII_jason_reseq	0.621	0.381
Isoniazid02	-0.723	0.239
Rifampicin4	0.647	-0.39
Ethambutol3	-0.373	1.589
Meropenem3	-1.329	-0.014
Vancomycin16	-0.568	-0.135
Rv2680_day32	-2.766	-0.411
H37Rv_KO_MarP	0.401	0.629
hypoxia_3wks	0.044	0.562
hypoxia_6wks	0.67	-0.311
glycerol	-0.357	-0.919
cholesterol	-0.07	1.077
AJ	-0.015	-0.698
Bibs02	-0.558	-0.423
Bibs02c	0.571	0.214
BL6	0.368	-0.242
BL6a	0.927	0.486
BXD01	0.66	0.933
BXD010	-0.018	-0.727
BXD011	0.008	0.266
BXD03	0.289	0.653
BXD04	0.389	1.039
BXD05	1.214	0.33
BXD06	0.642	0.278
BXD07	0.769	0.976
BXD08	0.684	0.435
BXD09	0.576	0.491
CAST	0.137	0.087
CCcont	-0.389	0.253
DS01	-0.536	0.323
DS02	-0.438	0.52
DS04	-0.208	-0.305
DS0c	1.571	0.222
GP01	1.334	0.88
GP02	-0.538	-1.043
GP0c	-0.23	-0.288
NOD	-0.174	-0.236
NZO	-0.663	-0.296
PWK	0.993	-0.189
H37Rv_KO_CtpC	0.613	0.12
H37Rv_KO_CtpD	1.171	0.569
H37Rv_KO_Rv1272	0.714	-0.021
H37Rv_KO_SugABC	-1.841	-0.589
H37Rv_KO_MbtN	-1.256	1.129
Trans05	0.127	-1.029
macrophage_unactivated	0.877	0.597
IL1	0.068	0.05
Rapamycin	0.071	-0.083
Tcell	0.345	0.029
GMCSF	1.085	-0.264
IFNab	0.121	-0.447
IFNg	0.535	-0.345
IFNg_GMCSF1	0.214	0.028
Rv1432_day32	1.7	-0.302
Rv1565c_day32	-0.381	0.439
secA2_input	-0.304	-0.157
delta_Rv3594	-2.168	-0.792
delta_Rv3717	-1.986	-1.861
delta_Rv3811	-1.698	-1.209
delta_Rv0954	-1.265	-0.774
PonA1	-2.401	-0.444
EccD1_KO	1.214	0.625
EspI_KO	0.633	1.426
PE35_KO	1.896	1.683
PPE68_KO	1.609	1.03
glycerol2	0.371	0.486
lignocerate	-0.186	-0.026
oleate	0.74	0.615
phosphatidylcholine	0.577	0.52
acetate	-0.977	-0.351
glucAc	-1.121	-0.473
Rv0950ko	0.757	-0.024
Rv1096ko	1.707	-0.317
Rv3684ko	-0.242	0.321
delta_otsA_trehalose	-2.389	-2.952