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 Rv3291c/lrpA

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

	Rv0399c/lpqK	Rv3291c/lrpA
Fe_supp_jason_reseq	0.215	-0.578
low_pH_jason_reseq	0.087	2.029
NO_jason_reseq	0.522	-0.601
B6_jason_reseq	0.114	-0.222
MHCII_jason_reseq	0.21	-0.252
Isoniazid02	-3.51	-2.93
Rifampicin4	0.764	0.349
Ethambutol3	-2.908	-2.265
Meropenem3	-2.207	-2.83
Vancomycin16	-1.08	-0.844
Rv2680_day32	-0.648	-1.684
H37Rv_KO_MarP	-0.277	-0.327
hypoxia_3wks	0.375	0.0
hypoxia_6wks	1.054	1.186
glycerol	0.107	-1.232
cholesterol	0.349	-0.36
AJ	0.153	-0.145
Bibs02	-0.076	0.54
Bibs02c	1.291	0.2
BL6	-0.052	0.98
BL6a	0.936	0.702
BXD01	0.069	0.461
BXD010	0.39	1.512
BXD011	-0.185	1.021
BXD03	0.695	0.626
BXD04	0.244	0.752
BXD05	0.488	0.863
BXD06	0.018	0.967
BXD07	0.091	0.641
BXD08	0.444	0.509
BXD09	0.0	0.789
CAST	0.062	0.344
CCcont	-0.127	0.058
DS01	0.544	-0.412
DS02	-0.121	-0.044
DS04	0.966	0.687
DS0c	0.523	0.324
GP01	-0.144	-0.756
GP02	-0.527	-0.972
GP0c	0.018	-0.29
NOD	1.193	-0.14
NZO	-0.027	-0.211
PWK	0.129	0.152
H37Rv_KO_CtpC	0.086	-0.067
H37Rv_KO_CtpD	1.419	1.14
H37Rv_KO_Rv1272	-0.079	0.52
H37Rv_KO_SugABC	0.683	2.654
H37Rv_KO_MbtN	0.215	1.817
Trans05	0.052	0.406
macrophage_unactivated	-0.363	-0.271
IL1	-0.78	-0.525
Rapamycin	0.381	-0.543
Tcell	0.176	-0.837
GMCSF	0.327	-0.858
IFNab	-0.662	-0.68
IFNg	-0.051	-0.823
IFNg_GMCSF1	0.443	-0.223
Rv1432_day32	0.082	-0.239
Rv1565c_day32	0.269	0.251
secA2_input	0.312	0.421
delta_Rv3594	0.057	-0.746
delta_Rv3717	0.115	-1.711
delta_Rv3811	-0.028	-0.815
delta_Rv0954	-0.96	0.171
PonA1	-0.112	-0.167
EccD1_KO	0.161	0.793
EspI_KO	0.274	0.662
PE35_KO	0.236	1.304
PPE68_KO	0.259	0.71
glycerol2	0.238	-0.911
lignocerate	0.524	-0.161
oleate	0.631	0.308
phosphatidylcholine	0.496	-0.328
acetate	0.535	0.487
glucAc	0.349	-0.614
Rv0950ko	0.048	0.633
Rv1096ko	0.745	1.236
Rv3684ko	-0.321	0.809
delta_otsA_trehalose	0.178	0.274