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 Rv0370c/-

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

	Rv3291c/lrpA	Rv0370c/-
Fe_supp_jason_reseq	-0.578	-0.553
low_pH_jason_reseq	2.029	1.696
NO_jason_reseq	-0.601	0.42
B6_jason_reseq	-0.222	-0.388
MHCII_jason_reseq	-0.252	-1.006
Isoniazid02	-2.93	-0.741
Rifampicin4	0.349	0.72
Ethambutol3	-2.265	-0.912
Meropenem3	-2.83	-0.072
Vancomycin16	-0.844	0.101
Rv2680_day32	-1.684	-0.893
H37Rv_KO_MarP	-0.327	-0.416
hypoxia_3wks	0.0	0.0
hypoxia_6wks	1.186	0.372
glycerol	-1.232	0.471
cholesterol	-0.36	-0.098
AJ	-0.145	1.4
Bibs02	0.54	0.608
Bibs02c	0.2	-0.54
BL6	0.98	0.117
BL6a	0.702	1.195
BXD01	0.461	0.042
BXD010	1.512	1.067
BXD011	1.021	1.169
BXD03	0.626	0.243
BXD04	0.752	0.382
BXD05	0.863	-0.188
BXD06	0.967	0.73
BXD07	0.641	1.112
BXD08	0.509	0.442
BXD09	0.789	0.434
CAST	0.344	-0.237
CCcont	0.058	0.633
DS01	-0.412	0.075
DS02	-0.044	-0.224
DS04	0.687	-0.2
DS0c	0.324	-0.146
GP01	-0.756	-0.594
GP02	-0.972	0.052
GP0c	-0.29	-0.86
NOD	-0.14	-0.775
NZO	-0.211	1.631
PWK	0.152	0.789
H37Rv_KO_CtpC	-0.067	1.305
H37Rv_KO_CtpD	1.14	1.835
H37Rv_KO_Rv1272	0.52	1.819
H37Rv_KO_SugABC	2.654	1.368
H37Rv_KO_MbtN	1.817	1.359
Trans05	0.406	1.569
macrophage_unactivated	-0.271	0.518
IL1	-0.525	0.985
Rapamycin	-0.543	0.15
Tcell	-0.837	-0.336
GMCSF	-0.858	0.375
IFNab	-0.68	-0.076
IFNg	-0.823	0.78
IFNg_GMCSF1	-0.223	-0.408
Rv1432_day32	-0.239	0.524
Rv1565c_day32	0.251	0.82
secA2_input	0.421	-0.204
delta_Rv3594	-0.746	0.058
delta_Rv3717	-1.711	0.273
delta_Rv3811	-0.815	-0.757
delta_Rv0954	0.171	0.704
PonA1	-0.167	1.062
EccD1_KO	0.793	0.0
EspI_KO	0.662	0.736
PE35_KO	1.304	0.543
PPE68_KO	0.71	0.512
glycerol2	-0.911	-0.618
lignocerate	-0.161	-0.415
oleate	0.308	-1.117
phosphatidylcholine	-0.328	-0.618
acetate	0.487	0.658
glucAc	-0.614	0.184
Rv0950ko	0.633	0.684
Rv1096ko	1.236	1.342
Rv3684ko	0.809	0.829
delta_otsA_trehalose	0.274	-0.672