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 Rv0968/-

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

	Rv0399c/lpqK	Rv0968/-
Fe_supp_jason_reseq	0.215	0.704
low_pH_jason_reseq	0.087	-0.738
NO_jason_reseq	0.522	0.423
B6_jason_reseq	0.114	0.01
MHCII_jason_reseq	0.21	0.27
Isoniazid02	-3.51	-3.296
Rifampicin4	0.764	0.831
Ethambutol3	-2.908	-2.914
Meropenem3	-2.207	-3.018
Vancomycin16	-1.08	-1.112
Rv2680_day32	-0.648	0.91
H37Rv_KO_MarP	-0.277	0.883
hypoxia_3wks	0.375	-0.203
hypoxia_6wks	1.054	-1.349
glycerol	0.107	0.677
cholesterol	0.349	0.845
AJ	0.153	0.528
Bibs02	-0.076	-0.278
Bibs02c	1.291	0.671
BL6	-0.052	-0.789
BL6a	0.936	-0.393
BXD01	0.069	-0.379
BXD010	0.39	-0.019
BXD011	-0.185	-0.923
BXD03	0.695	-0.794
BXD04	0.244	-0.426
BXD05	0.488	0.48
BXD06	0.018	-0.954
BXD07	0.091	-0.699
BXD08	0.444	-0.379
BXD09	0.0	-0.542
CAST	0.062	0.265
CCcont	-0.127	-0.929
DS01	0.544	-0.469
DS02	-0.121	0.635
DS04	0.966	0.093
DS0c	0.523	-0.211
GP01	-0.144	0.345
GP02	-0.527	-0.744
GP0c	0.018	-0.329
NOD	1.193	0.885
NZO	-0.027	-0.27
PWK	0.129	-0.254
H37Rv_KO_CtpC	0.086	-0.14
H37Rv_KO_CtpD	1.419	1.622
H37Rv_KO_Rv1272	-0.079	1.062
H37Rv_KO_SugABC	0.683	0.86
H37Rv_KO_MbtN	0.215	-1.047
Trans05	0.052	-0.921
macrophage_unactivated	-0.363	-0.843
IL1	-0.78	-0.946
Rapamycin	0.381	-1.105
Tcell	0.176	-0.472
GMCSF	0.327	-0.055
IFNab	-0.662	-0.13
IFNg	-0.051	-0.516
IFNg_GMCSF1	0.443	-0.569
Rv1432_day32	0.082	-0.215
Rv1565c_day32	0.269	0.445
secA2_input	0.312	1.842
delta_Rv3594	0.057	0.096
delta_Rv3717	0.115	-0.593
delta_Rv3811	-0.028	-0.167
delta_Rv0954	-0.96	-0.105
PonA1	-0.112	1.324
EccD1_KO	0.161	1.237
EspI_KO	0.274	-0.074
PE35_KO	0.236	0.111
PPE68_KO	0.259	-0.192
glycerol2	0.238	0.146
lignocerate	0.524	0.072
oleate	0.631	0.18
phosphatidylcholine	0.496	0.326
acetate	0.535	0.352
glucAc	0.349	0.061
Rv0950ko	0.048	0.458
Rv1096ko	0.745	1.2
Rv3684ko	-0.321	0.652
delta_otsA_trehalose	0.178	1.843