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 Rv3431c/-:

update plot	correlation	link to info on gene
Rv1075c/-	(cc=0.5139)	info on Rv1075c/-
Rv1040c/PE8	(cc=0.4583)	info on Rv1040c/PE8
Rv0675/echA5	(cc=0.4352)	info on Rv0675/echA5
Rv2142c/parE2	(cc=0.433)	info on Rv2142c/parE2
Rv0571c/-	(cc=0.4289)	info on Rv0571c/-
Rv2530A/vapB39	(cc=0.4211)	info on Rv2530A/vapB39
Rv0523c/-	(cc=0.4161)	info on Rv0523c/-
Rv1907c/-	(cc=0.4143)	info on Rv1907c/-
Rv0829/-	(cc=0.4057)	info on Rv0829/-
Rv1538c/ansA	(cc=0.3948)	info on Rv1538c/ansA

Correlation of Rv3431c/- with Rv2530A/vapB39

Normalized LFCs for Rv3431c/-:
(description and provenance of datasets)

	Rv3431c/-	Rv2530A/vapB39
Fe_supp_jason_reseq	-0.714	-1.965
low_pH_jason_reseq	-0.686	0.164
NO_jason_reseq	-0.499	-0.898
B6_jason_reseq	-0.525	0.109
MHCII_jason_reseq	0.641	-2.36
Isoniazid02	0.342	-0.065
Rifampicin4	0.141	0.726
Ethambutol3	1.51	0.088
Meropenem3	0.008	0.135
Vancomycin16	-0.021	0.191
Rv2680_day32	1.029	1.886
H37Rv_KO_MarP	-0.295	0.659
hypoxia_3wks	-0.498	-0.833
hypoxia_6wks	0.0	-0.946
glycerol	-1.204	0.544
cholesterol	-0.582	-1.141
AJ	0.23	0.434
Bibs02	0.069	-1.216
Bibs02c	0.708	-1.234
BL6	0.59	-0.53
BL6a	0.403	0.957
BXD01	0.07	-0.264
BXD010	0.0	-0.228
BXD011	-0.253	0.26
BXD03	0.079	0.157
BXD04	0.353	0.372
BXD05	0.553	0.542
BXD06	-0.037	-0.836
BXD07	-0.399	-0.058
BXD08	-0.238	-0.738
BXD09	0.208	-0.321
CAST	0.11	1.472
CCcont	-0.228	0.118
DS01	-0.014	-0.364
DS02	0.829	-0.61
DS04	-0.49	-1.528
DS0c	0.564	0.292
GP01	-0.788	0.059
GP02	0.891	0.402
GP0c	0.148	1.802
NOD	0.107	0.905
NZO	-0.045	2.461
PWK	-0.156	0.763
H37Rv_KO_CtpC	-1.297	-1.018
H37Rv_KO_CtpD	0.162	0.968
H37Rv_KO_Rv1272	0.605	1.467
H37Rv_KO_SugABC	-0.25	-1.588
H37Rv_KO_MbtN	-0.537	-1.183
Trans05	0.498	2.214
macrophage_unactivated	0.518	0.442
IL1	-0.917	0.572
Rapamycin	-0.85	1.642
Tcell	-0.603	1.47
GMCSF	-1.019	-0.869
IFNab	-0.133	0.26
IFNg	-0.241	0.649
IFNg_GMCSF1	1.69	0.355
Rv1432_day32	-0.133	0.666
Rv1565c_day32	-0.264	-1.071
secA2_input	1.653	1.697
delta_Rv3594	1.608	3.775
delta_Rv3717	0.807	2.848
delta_Rv3811	1.157	3.618
delta_Rv0954	0.695	1.026
PonA1	1.789	2.947
EccD1_KO	0.483	1.523
EspI_KO	0.396	0.841
PE35_KO	0.54	1.114
PPE68_KO	0.214	0.944
glycerol2	0.039	0.213
lignocerate	-0.035	1.381
oleate	0.516	-2.247
phosphatidylcholine	0.332	0.856
acetate	-0.173	1.38
glucAc	-0.366	1.61
Rv0950ko	0.081	0.733
Rv1096ko	0.775	2.265
Rv3684ko	0.452	0.521
delta_otsA_trehalose	-0.662	-0.437