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 Rv1620c/cydC:

update plot	correlation	link to info on gene
Rv1623c/cydA	(cc=0.7071)	info on Rv1623c/cydA
Rv1622c/cydB	(cc=0.6724)	info on Rv1622c/cydB
Rv1621c/cydD	(cc=0.6593)	info on Rv1621c/cydD
Rv1551/plsB1	(cc=0.4214)	info on Rv1551/plsB1
Rv2439c/proB	(cc=0.4143)	info on Rv2439c/proB
Rv1159/pimE	(cc=0.4127)	info on Rv1159/pimE
Rv3207c/-	(cc=0.4073)	info on Rv3207c/-
Rv0127/mak	(cc=0.4043)	info on Rv0127/mak
Rv1867/-	(cc=0.4019)	info on Rv1867/-
Rv0412c/-	(cc=0.3948)	info on Rv0412c/-

Correlation of Rv1620c/cydC with Rv0127/mak

Normalized LFCs for Rv1620c/cydC:
(description and provenance of datasets)

	Rv1620c/cydC	Rv0127/mak
Fe_supp_jason_reseq	0.398	0.706
low_pH_jason_reseq	-0.811	0.211
NO_jason_reseq	-2.809	0.0
B6_jason_reseq	-1.187	-0.153
MHCII_jason_reseq	-1.046	-0.135
Isoniazid02	-0.383	-0.167
Rifampicin4	0.0	-1.026
Ethambutol3	-0.32	-0.293
Meropenem3	-0.315	-0.454
Vancomycin16	0.0	-0.305
Rv2680_day32	0.764	0.0
H37Rv_KO_MarP	-2.145	-5.761
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.471	0.554
cholesterol	-0.132	0.0
AJ	-0.212	0.0
Bibs02	-0.167	0.0
Bibs02c	-0.399	0.0
BL6	0.376	0.0
BL6a	0.319	0.0
BXD01	-0.119	0.0
BXD010	0.206	0.0
BXD011	0.464	0.0
BXD03	-0.258	0.0
BXD04	2.242	0.0
BXD05	1.505	0.0
BXD06	0.641	0.0
BXD07	-0.126	0.0
BXD08	0.485	0.0
BXD09	0.226	0.0
CAST	0.0	0.0
CCcont	1.016	1.662
DS01	-0.45	0.236
DS02	-0.414	0.0
DS04	-0.37	0.0
DS0c	-0.198	0.0
GP01	3.117	0.0
GP02	4.755	0.0
GP0c	3.61	0.357
NOD	-0.428	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.135	0.446
H37Rv_KO_CtpD	0.381	0.127
H37Rv_KO_Rv1272	-0.269	0.0
H37Rv_KO_SugABC	-0.09	0.0
H37Rv_KO_MbtN	2.607	0.799
Trans05	-0.249	0.0
macrophage_unactivated	0.761	0.0
IL1	1.326	0.0
Rapamycin	0.74	0.0
Tcell	0.0	0.0
GMCSF	-0.364	0.0
IFNab	0.0	0.0
IFNg	0.93	0.0
IFNg_GMCSF1	0.757	0.0
Rv1432_day32	0.999	0.0
Rv1565c_day32	0.599	0.0
secA2_input	0.477	1.194
delta_Rv3594	0.164	0.0
delta_Rv3717	1.114	-0.633
delta_Rv3811	-0.358	-1.139
delta_Rv0954	0.894	-0.362
PonA1	3.025	-0.725
EccD1_KO	0.352	1.316
EspI_KO	2.165	2.672
PE35_KO	0.601	1.027
PPE68_KO	0.96	4.051
glycerol2	0.531	-0.68
lignocerate	0.712	-0.591
oleate	0.0	-0.688
phosphatidylcholine	0.193	-0.679
acetate	1.127	0.321
glucAc	1.306	0.456
Rv0950ko	-1.616	-0.76
Rv1096ko	0.148	-0.573
Rv3684ko	3.435	3.927
delta_otsA_trehalose	0.226	0.518