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 Rv1980c/mpt64

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

	Rv2496c/bkdB	Rv1980c/mpt64
Fe_supp_jason_reseq	0.469	0.183
low_pH_jason_reseq	0.381	-1.272
NO_jason_reseq	1.197	0.822
B6_jason_reseq	-1.586	-0.773
MHCII_jason_reseq	0.223	-0.494
Isoniazid02	0.135	-0.544
Rifampicin4	-1.21	0.13
Ethambutol3	0.22	-0.855
Meropenem3	-0.789	-0.122
Vancomycin16	-0.13	-0.164
Rv2680_day32	-0.05	0.222
H37Rv_KO_MarP	-0.354	0.031
hypoxia_3wks	0.63	0.076
hypoxia_6wks	0.0	-0.113
glycerol	-1.463	-0.272
cholesterol	-0.691	-0.083
AJ	0.442	0.292
Bibs02	-0.273	-0.246
Bibs02c	-1.375	-0.203
BL6	1.107	0.961
BL6a	0.198	0.816
BXD01	1.094	0.798
BXD010	0.629	1.359
BXD011	0.448	1.252
BXD03	0.882	1.45
BXD04	1.131	1.749
BXD05	0.602	1.489
BXD06	0.535	1.461
BXD07	1.247	0.985
BXD08	0.253	0.887
BXD09	0.347	0.884
CAST	-1.23	0.197
CCcont	0.917	0.425
DS01	-0.26	-1.211
DS02	-0.158	-0.107
DS04	-0.453	-0.859
DS0c	0.919	-0.586
GP01	0.188	-0.291
GP02	0.617	-0.407
GP0c	0.61	0.121
NOD	-0.428	0.342
NZO	-0.144	0.211
PWK	0.067	1.593
H37Rv_KO_CtpC	0.0	0.703
H37Rv_KO_CtpD	0.65	1.443
H37Rv_KO_Rv1272	0.227	1.209
H37Rv_KO_SugABC	0.348	-1.353
H37Rv_KO_MbtN	1.484	1.634
Trans05	1.47	1.601
macrophage_unactivated	0.597	0.069
IL1	0.878	-0.047
Rapamycin	0.973	0.233
Tcell	-1.007	0.062
GMCSF	0.89	0.248
IFNab	1.019	0.405
IFNg	0.505	0.703
IFNg_GMCSF1	0.0	0.333
Rv1432_day32	-0.055	0.66
Rv1565c_day32	0.231	-0.234
secA2_input	-1.244	-0.571
delta_Rv3594	-0.122	0.101
delta_Rv3717	-0.863	0.15
delta_Rv3811	-0.379	-0.006
delta_Rv0954	-0.886	-0.047
PonA1	-0.792	-0.335
EccD1_KO	0.835	-0.016
EspI_KO	0.588	0.75
PE35_KO	0.601	0.811
PPE68_KO	1.171	0.669
glycerol2	0.238	0.196
lignocerate	0.284	-0.619
oleate	1.259	1.321
phosphatidylcholine	0.49	-0.296
acetate	-0.462	-0.392
glucAc	-0.586	-0.583
Rv0950ko	-0.172	0.368
Rv1096ko	0.477	-0.271
Rv3684ko	0.675	-0.475
delta_otsA_trehalose	-0.075	0.706