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 Rv2738c/-

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

	Rv0399c/lpqK	Rv2738c/-
Fe_supp_jason_reseq	0.215	-0.415
low_pH_jason_reseq	0.087	1.104
NO_jason_reseq	0.522	-1.013
B6_jason_reseq	0.114	-1.973
MHCII_jason_reseq	0.21	-1.598
Isoniazid02	-3.51	-4.829
Rifampicin4	0.764	0.904
Ethambutol3	-2.908	-3.412
Meropenem3	-2.207	-3.54
Vancomycin16	-1.08	-1.417
Rv2680_day32	-0.648	-1.982
H37Rv_KO_MarP	-0.277	0.579
hypoxia_3wks	0.375	-1.388
hypoxia_6wks	1.054	-0.704
glycerol	0.107	1.011
cholesterol	0.349	0.041
AJ	0.153	-0.632
Bibs02	-0.076	0.366
Bibs02c	1.291	0.826
BL6	-0.052	-1.448
BL6a	0.936	0.647
BXD01	0.069	-0.064
BXD010	0.39	0.445
BXD011	-0.185	-0.063
BXD03	0.695	0.92
BXD04	0.244	0.058
BXD05	0.488	0.955
BXD06	0.018	0.235
BXD07	0.091	0.432
BXD08	0.444	0.851
BXD09	0.0	0.013
CAST	0.062	-1.875
CCcont	-0.127	-1.564
DS01	0.544	-0.89
DS02	-0.121	0.274
DS04	0.966	1.116
DS0c	0.523	-1.353
GP01	-0.144	-0.109
GP02	-0.527	-0.894
GP0c	0.018	0.107
NOD	1.193	0.571
NZO	-0.027	-0.139
PWK	0.129	-0.997
H37Rv_KO_CtpC	0.086	1.283
H37Rv_KO_CtpD	1.419	0.387
H37Rv_KO_Rv1272	-0.079	0.226
H37Rv_KO_SugABC	0.683	-1.147
H37Rv_KO_MbtN	0.215	0.393
Trans05	0.052	1.008
macrophage_unactivated	-0.363	-0.657
IL1	-0.78	-0.267
Rapamycin	0.381	0.298
Tcell	0.176	0.456
GMCSF	0.327	-1.048
IFNab	-0.662	-0.103
IFNg	-0.051	0.406
IFNg_GMCSF1	0.443	-0.129
Rv1432_day32	0.082	0.096
Rv1565c_day32	0.269	-0.76
secA2_input	0.312	0.387
delta_Rv3594	0.057	0.277
delta_Rv3717	0.115	0.147
delta_Rv3811	-0.028	0.891
delta_Rv0954	-0.96	0.0
PonA1	-0.112	0.19
EccD1_KO	0.161	0.576
EspI_KO	0.274	0.063
PE35_KO	0.236	-1.138
PPE68_KO	0.259	-0.243
glycerol2	0.238	-0.958
lignocerate	0.524	-0.401
oleate	0.631	-1.46
phosphatidylcholine	0.496	-0.287
acetate	0.535	0.048
glucAc	0.349	-0.127
Rv0950ko	0.048	0.917
Rv1096ko	0.745	-0.051
Rv3684ko	-0.321	0.688
delta_otsA_trehalose	0.178	0.382