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 Rv2496c/bkdB:

update plot	correlation	link to info on gene
Rv1430/PE16	(cc=0.5391)	info on Rv1430/PE16
Rv2857c/-	(cc=0.5223)	info on Rv2857c/-
Rv0397A/-	(cc=0.5208)	info on Rv0397A/-
Rv1551/plsB1	(cc=0.508)	info on Rv1551/plsB1
Rv1021/-	(cc=0.5078)	info on Rv1021/-
Rv1353c/-	(cc=0.4926)	info on Rv1353c/-
Rv1496/-	(cc=0.4913)	info on Rv1496/-
Rv1521/fadD25	(cc=0.4806)	info on Rv1521/fadD25
Rv1729c/-	(cc=0.4775)	info on Rv1729c/-
Rv1980c/mpt64	(cc=0.4734)	info on Rv1980c/mpt64

Correlation of Rv2496c/bkdB with Rv1353c/-

Normalized LFCs for Rv2496c/bkdB:
(description and provenance of datasets)

	Rv2496c/bkdB	Rv1353c/-
Fe_supp_jason_reseq	0.469	0.423
low_pH_jason_reseq	0.381	0.683
NO_jason_reseq	1.197	0.226
B6_jason_reseq	-1.586	0.125
MHCII_jason_reseq	0.223	-0.151
Isoniazid02	0.135	-0.567
Rifampicin4	-1.21	0.504
Ethambutol3	0.22	-0.51
Meropenem3	-0.789	-0.399
Vancomycin16	-0.13	0.029
Rv2680_day32	-0.05	-0.354
H37Rv_KO_MarP	-0.354	0.406
hypoxia_3wks	0.63	-0.734
hypoxia_6wks	0.0	-0.04
glycerol	-1.463	-1.463
cholesterol	-0.691	-0.055
AJ	0.442	0.894
Bibs02	-0.273	-1.011
Bibs02c	-1.375	-0.906
BL6	1.107	1.039
BL6a	0.198	0.432
BXD01	1.094	0.416
BXD010	0.629	0.916
BXD011	0.448	0.198
BXD03	0.882	0.374
BXD04	1.131	0.825
BXD05	0.602	1.163
BXD06	0.535	1.175
BXD07	1.247	0.654
BXD08	0.253	0.53
BXD09	0.347	0.76
CAST	-1.23	-0.998
CCcont	0.917	0.966
DS01	-0.26	-0.77
DS02	-0.158	0.158
DS04	-0.453	-1.556
DS0c	0.919	1.15
GP01	0.188	0.885
GP02	0.617	0.759
GP0c	0.61	0.689
NOD	-0.428	-1.801
NZO	-0.144	0.246
PWK	0.067	-0.037
H37Rv_KO_CtpC	0.0	0.354
H37Rv_KO_CtpD	0.65	1.43
H37Rv_KO_Rv1272	0.227	0.0
H37Rv_KO_SugABC	0.348	-1.297
H37Rv_KO_MbtN	1.484	0.24
Trans05	1.47	0.934
macrophage_unactivated	0.597	0.682
IL1	0.878	1.092
Rapamycin	0.973	1.203
Tcell	-1.007	0.433
GMCSF	0.89	0.121
IFNab	1.019	0.23
IFNg	0.505	-0.043
IFNg_GMCSF1	0.0	0.55
Rv1432_day32	-0.055	0.888
Rv1565c_day32	0.231	0.013
secA2_input	-1.244	-2.069
delta_Rv3594	-0.122	0.843
delta_Rv3717	-0.863	0.237
delta_Rv3811	-0.379	1.164
delta_Rv0954	-0.886	-0.384
PonA1	-0.792	-0.039
EccD1_KO	0.835	0.095
EspI_KO	0.588	1.286
PE35_KO	0.601	1.736
PPE68_KO	1.171	1.232
glycerol2	0.238	0.356
lignocerate	0.284	0.843
oleate	1.259	0.608
phosphatidylcholine	0.49	0.945
acetate	-0.462	1.368
glucAc	-0.586	0.929
Rv0950ko	-0.172	0.323
Rv1096ko	0.477	0.682
Rv3684ko	0.675	1.742
delta_otsA_trehalose	-0.075	-2.4