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 Rv3406/-:

update plot	correlation	link to info on gene
Rv2679/echA15	(cc=0.5782)	info on Rv2679/echA15
Rv0342/iniA	(cc=0.5703)	info on Rv0342/iniA
Rv3504/fadE26	(cc=0.5238)	info on Rv3504/fadE26
Rv3329/-	(cc=0.5224)	info on Rv3329/-
Rv0443/-	(cc=0.5187)	info on Rv0443/-
Rv3397c/phyA	(cc=0.5177)	info on Rv3397c/phyA
Rv3191c/-	(cc=0.505)	info on Rv3191c/-
Rv0399c/lpqK	(cc=0.5021)	info on Rv0399c/lpqK
Rv0968/-	(cc=0.4967)	info on Rv0968/-
Rv0104/-	(cc=0.4936)	info on Rv0104/-

Correlation of Rv3406/- with Rv2679/echA15

Normalized LFCs for Rv3406/-:
(description and provenance of datasets)

	Rv3406/-	Rv2679/echA15
Fe_supp_jason_reseq	-0.343	-0.857
low_pH_jason_reseq	-0.477	-1.198
NO_jason_reseq	-0.347	1.142
B6_jason_reseq	-0.298	-0.225
MHCII_jason_reseq	0.298	0.652
Isoniazid02	-1.986	-2.239
Rifampicin4	0.368	0.214
Ethambutol3	-1.893	-1.268
Meropenem3	-0.167	-1.438
Vancomycin16	-0.748	-0.873
Rv2680_day32	-0.062	0.16
H37Rv_KO_MarP	0.524	0.085
hypoxia_3wks	-0.032	-0.319
hypoxia_6wks	-0.386	-0.66
glycerol	0.023	0.48
cholesterol	-0.246	0.102
AJ	0.531	0.388
Bibs02	0.201	-0.71
Bibs02c	-0.662	0.1
BL6	1.034	0.269
BL6a	0.145	-0.696
BXD01	-0.008	0.183
BXD010	0.811	-0.586
BXD011	0.153	0.013
BXD03	-0.158	-0.669
BXD04	0.425	-0.318
BXD05	0.565	-0.124
BXD06	0.274	-0.331
BXD07	0.336	0.032
BXD08	0.023	0.514
BXD09	0.494	-0.61
CAST	0.46	-0.445
CCcont	0.043	0.019
DS01	0.31	-0.12
DS02	-0.05	-0.347
DS04	0.077	0.201
DS0c	-0.239	-0.925
GP01	0.288	0.265
GP02	1.221	1.004
GP0c	-0.528	0.0
NOD	0.809	0.41
NZO	-0.194	0.202
PWK	0.512	0.32
H37Rv_KO_CtpC	-0.067	0.118
H37Rv_KO_CtpD	0.795	1.037
H37Rv_KO_Rv1272	-0.911	-0.179
H37Rv_KO_SugABC	0.155	-0.594
H37Rv_KO_MbtN	-0.211	0.237
Trans05	-0.565	-0.359
macrophage_unactivated	-0.331	-0.994
IL1	0.039	0.329
Rapamycin	-0.04	0.377
Tcell	0.124	-0.267
GMCSF	0.195	0.692
IFNab	-0.218	0.054
IFNg	0.449	-0.168
IFNg_GMCSF1	0.251	0.258
Rv1432_day32	0.252	0.096
Rv1565c_day32	-0.24	-0.321
secA2_input	-0.016	0.603
delta_Rv3594	-0.465	-0.387
delta_Rv3717	-0.262	0.248
delta_Rv3811	-0.149	-1.472
delta_Rv0954	0.419	-0.076
PonA1	0.259	-0.062
EccD1_KO	0.691	-0.454
EspI_KO	0.046	0.157
PE35_KO	-0.047	-0.362
PPE68_KO	-0.211	0.118
glycerol2	0.553	0.387
lignocerate	0.225	0.716
oleate	0.527	0.795
phosphatidylcholine	0.5	0.794
acetate	0.219	0.073
glucAc	0.06	0.036
Rv0950ko	0.573	0.627
Rv1096ko	0.694	0.609
Rv3684ko	0.151	0.544
delta_otsA_trehalose	1.329	1.186