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 Rv1997/ctpF

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

	Rv0399c/lpqK	Rv1997/ctpF
Fe_supp_jason_reseq	0.215	-0.878
low_pH_jason_reseq	0.087	-0.186
NO_jason_reseq	0.522	-0.095
B6_jason_reseq	0.114	0.162
MHCII_jason_reseq	0.21	0.632
Isoniazid02	-3.51	-2.354
Rifampicin4	0.764	0.523
Ethambutol3	-2.908	-1.859
Meropenem3	-2.207	-1.853
Vancomycin16	-1.08	-0.881
Rv2680_day32	-0.648	-0.306
H37Rv_KO_MarP	-0.277	-0.102
hypoxia_3wks	0.375	0.152
hypoxia_6wks	1.054	0.209
glycerol	0.107	0.041
cholesterol	0.349	-0.328
AJ	0.153	-0.129
Bibs02	-0.076	0.629
Bibs02c	1.291	0.494
BL6	-0.052	-0.134
BL6a	0.936	-0.257
BXD01	0.069	-0.242
BXD010	0.39	-0.367
BXD011	-0.185	-0.791
BXD03	0.695	-0.824
BXD04	0.244	-1.454
BXD05	0.488	-0.82
BXD06	0.018	-1.041
BXD07	0.091	-1.1
BXD08	0.444	-0.81
BXD09	0.0	-0.908
CAST	0.062	0.322
CCcont	-0.127	-0.77
DS01	0.544	0.258
DS02	-0.121	0.238
DS04	0.966	0.212
DS0c	0.523	0.404
GP01	-0.144	-0.554
GP02	-0.527	0.022
GP0c	0.018	-0.149
NOD	1.193	0.542
NZO	-0.027	-0.37
PWK	0.129	-0.301
H37Rv_KO_CtpC	0.086	0.033
H37Rv_KO_CtpD	1.419	0.313
H37Rv_KO_Rv1272	-0.079	0.254
H37Rv_KO_SugABC	0.683	0.718
H37Rv_KO_MbtN	0.215	-0.242
Trans05	0.052	0.391
macrophage_unactivated	-0.363	-0.303
IL1	-0.78	-0.486
Rapamycin	0.381	-0.095
Tcell	0.176	-0.313
GMCSF	0.327	0.04
IFNab	-0.662	-0.444
IFNg	-0.051	-0.58
IFNg_GMCSF1	0.443	-0.198
Rv1432_day32	0.082	0.021
Rv1565c_day32	0.269	-0.235
secA2_input	0.312	0.834
delta_Rv3594	0.057	-0.154
delta_Rv3717	0.115	-0.235
delta_Rv3811	-0.028	-0.329
delta_Rv0954	-0.96	-0.376
PonA1	-0.112	-1.025
EccD1_KO	0.161	0.352
EspI_KO	0.274	0.04
PE35_KO	0.236	0.35
PPE68_KO	0.259	0.218
glycerol2	0.238	0.223
lignocerate	0.524	-0.029
oleate	0.631	0.457
phosphatidylcholine	0.496	0.283
acetate	0.535	-0.062
glucAc	0.349	0.085
Rv0950ko	0.048	-0.359
Rv1096ko	0.745	-0.6
Rv3684ko	-0.321	0.138
delta_otsA_trehalose	0.178	0.064