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 Rv3291c/lrpA:

update plot	correlation	link to info on gene
Rv0399c/lpqK	(cc=0.6164)	info on Rv0399c/lpqK
Rv0940c/-	(cc=0.556)	info on Rv0940c/-
Rv2791c/-	(cc=0.5523)	info on Rv2791c/-
Rv0925c/-	(cc=0.536)	info on Rv0925c/-
Rv3397c/phyA	(cc=0.5359)	info on Rv3397c/phyA
Rv1498c/-	(cc=0.518)	info on Rv1498c/-
Rv0370c/-	(cc=0.5162)	info on Rv0370c/-
Rv0932c/pstS2	(cc=0.5111)	info on Rv0932c/pstS2
Rv0831c/-	(cc=0.5077)	info on Rv0831c/-
Rv2336/-	(cc=0.5033)	info on Rv2336/-

Correlation of Rv3291c/lrpA with Rv0399c/lpqK

Normalized LFCs for Rv3291c/lrpA:
(description and provenance of datasets)

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