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 Rv0399c/lpqK:

update plot	correlation	link to info on gene
Rv0940c/-	(cc=0.6977)	info on Rv0940c/-
Rv0115/hddA	(cc=0.6841)	info on Rv0115/hddA
Rv3329/-	(cc=0.6616)	info on Rv3329/-
Rv1997/ctpF	(cc=0.658)	info on Rv1997/ctpF
Rv3191c/-	(cc=0.6372)	info on Rv3191c/-
Rv0968/-	(cc=0.6234)	info on Rv0968/-
Rv2738c/-	(cc=0.6205)	info on Rv2738c/-
Rv3291c/lrpA	(cc=0.6164)	info on Rv3291c/lrpA
Rv2313c/-	(cc=0.6091)	info on Rv2313c/-
Rv0342/iniA	(cc=0.578)	info on Rv0342/iniA

Correlation of Rv0399c/lpqK with Rv0940c/-

Normalized LFCs for Rv0399c/lpqK:
(description and provenance of datasets)

	Rv0399c/lpqK	Rv0940c/-
Fe_supp_jason_reseq	0.215	-0.546
low_pH_jason_reseq	0.087	-0.445
NO_jason_reseq	0.522	0.126
B6_jason_reseq	0.114	-0.989
MHCII_jason_reseq	0.21	-0.421
Isoniazid02	-3.51	-4.434
Rifampicin4	0.764	0.482
Ethambutol3	-2.908	-3.779
Meropenem3	-2.207	-4.315
Vancomycin16	-1.08	-1.417
Rv2680_day32	-0.648	0.113
H37Rv_KO_MarP	-0.277	-0.255
hypoxia_3wks	0.375	-0.841
hypoxia_6wks	1.054	0.754
glycerol	0.107	0.316
cholesterol	0.349	0.168
AJ	0.153	0.57
Bibs02	-0.076	-1.015
Bibs02c	1.291	-0.311
BL6	-0.052	0.847
BL6a	0.936	0.284
BXD01	0.069	0.715
BXD010	0.39	1.34
BXD011	-0.185	0.711
BXD03	0.695	0.332
BXD04	0.244	1.328
BXD05	0.488	0.263
BXD06	0.018	1.327
BXD07	0.091	1.065
BXD08	0.444	0.743
BXD09	0.0	0.917
CAST	0.062	0.754
CCcont	-0.127	1.0
DS01	0.544	0.719
DS02	-0.121	0.736
DS04	0.966	1.234
DS0c	0.523	-0.102
GP01	-0.144	0.312
GP02	-0.527	-0.803
GP0c	0.018	-0.446
NOD	1.193	0.469
NZO	-0.027	1.52
PWK	0.129	0.254
H37Rv_KO_CtpC	0.086	0.585
H37Rv_KO_CtpD	1.419	0.147
H37Rv_KO_Rv1272	-0.079	1.095
H37Rv_KO_SugABC	0.683	0.088
H37Rv_KO_MbtN	0.215	0.528
Trans05	0.052	0.895
macrophage_unactivated	-0.363	-0.082
IL1	-0.78	-0.317
Rapamycin	0.381	-0.16
Tcell	0.176	0.205
GMCSF	0.327	-0.137
IFNab	-0.662	-1.868
IFNg	-0.051	-1.446
IFNg_GMCSF1	0.443	-1.197
Rv1432_day32	0.082	1.249
Rv1565c_day32	0.269	0.692
secA2_input	0.312	-0.863
delta_Rv3594	0.057	-0.571
delta_Rv3717	0.115	-0.691
delta_Rv3811	-0.028	-0.663
delta_Rv0954	-0.96	-1.222
PonA1	-0.112	-1.092
EccD1_KO	0.161	0.089
EspI_KO	0.274	1.087
PE35_KO	0.236	0.522
PPE68_KO	0.259	0.65
glycerol2	0.238	1.375
lignocerate	0.524	2.046
oleate	0.631	-0.469
phosphatidylcholine	0.496	1.426
acetate	0.535	1.812
glucAc	0.349	1.613
Rv0950ko	0.048	-0.482
Rv1096ko	0.745	-0.115
Rv3684ko	-0.321	-0.524
delta_otsA_trehalose	0.178	0.254