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 Rv0115/hddA

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

	Rv0399c/lpqK	Rv0115/hddA
Fe_supp_jason_reseq	0.215	-0.505
low_pH_jason_reseq	0.087	0.028
NO_jason_reseq	0.522	0.478
B6_jason_reseq	0.114	0.344
MHCII_jason_reseq	0.21	0.484
Isoniazid02	-3.51	-2.546
Rifampicin4	0.764	0.495
Ethambutol3	-2.908	-2.227
Meropenem3	-2.207	-1.848
Vancomycin16	-1.08	-0.921
Rv2680_day32	-0.648	0.104
H37Rv_KO_MarP	-0.277	0.574
hypoxia_3wks	0.375	0.152
hypoxia_6wks	1.054	0.906
glycerol	0.107	0.521
cholesterol	0.349	0.021
AJ	0.153	0.333
Bibs02	-0.076	-0.864
Bibs02c	1.291	0.191
BL6	-0.052	-0.218
BL6a	0.936	0.453
BXD01	0.069	0.17
BXD010	0.39	0.323
BXD011	-0.185	-0.463
BXD03	0.695	0.159
BXD04	0.244	0.0
BXD05	0.488	0.0
BXD06	0.018	-0.165
BXD07	0.091	0.19
BXD08	0.444	0.173
BXD09	0.0	0.128
CAST	0.062	-0.23
CCcont	-0.127	0.064
DS01	0.544	0.609
DS02	-0.121	0.284
DS04	0.966	0.489
DS0c	0.523	-0.148
GP01	-0.144	0.468
GP02	-0.527	-0.338
GP0c	0.018	0.469
NOD	1.193	-0.511
NZO	-0.027	-0.136
PWK	0.129	0.594
H37Rv_KO_CtpC	0.086	-0.37
H37Rv_KO_CtpD	1.419	1.079
H37Rv_KO_Rv1272	-0.079	0.109
H37Rv_KO_SugABC	0.683	1.569
H37Rv_KO_MbtN	0.215	-0.653
Trans05	0.052	0.575
macrophage_unactivated	-0.363	0.11
IL1	-0.78	-0.747
Rapamycin	0.381	-0.709
Tcell	0.176	0.417
GMCSF	0.327	-0.61
IFNab	-0.662	-0.514
IFNg	-0.051	0.139
IFNg_GMCSF1	0.443	-0.694
Rv1432_day32	0.082	0.029
Rv1565c_day32	0.269	-0.36
secA2_input	0.312	-0.517
delta_Rv3594	0.057	-0.448
delta_Rv3717	0.115	-0.96
delta_Rv3811	-0.028	-0.629
delta_Rv0954	-0.96	-0.366
PonA1	-0.112	-0.806
EccD1_KO	0.161	-1.246
EspI_KO	0.274	-0.422
PE35_KO	0.236	-0.627
PPE68_KO	0.259	-0.659
glycerol2	0.238	0.332
lignocerate	0.524	0.544
oleate	0.631	0.072
phosphatidylcholine	0.496	0.392
acetate	0.535	0.258
glucAc	0.349	0.389
Rv0950ko	0.048	0.241
Rv1096ko	0.745	-0.642
Rv3684ko	-0.321	-1.055
delta_otsA_trehalose	0.178	-0.019