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 Rv3007c/-:

update plot	correlation	link to info on gene
Rv0064A/vapB1	(cc=0.4545)	info on Rv0064A/vapB1
Rv0456c/echA2	(cc=0.4446)	info on Rv0456c/echA2
Rv1515c/-	(cc=0.419)	info on Rv1515c/-
Rv2804c/-	(cc=0.4133)	info on Rv2804c/-
Rv3215/entC	(cc=0.4128)	info on Rv3215/entC
Rv1730c/-	(cc=0.3998)	info on Rv1730c/-
Rv3917c/parB	(cc=0.3921)	info on Rv3917c/parB
Rv1465/-	(cc=0.3915)	info on Rv1465/-
Rv2454c/-	(cc=0.387)	info on Rv2454c/-
Rv3729/-	(cc=0.3846)	info on Rv3729/-

Correlation of Rv3007c/- with Rv0064A/vapB1

Normalized LFCs for Rv3007c/-:
(description and provenance of datasets)

	Rv3007c/-	Rv0064A/vapB1
Fe_supp_jason_reseq	-0.69	-0.565
low_pH_jason_reseq	0.136	-0.689
NO_jason_reseq	-0.168	-0.294
B6_jason_reseq	0.09	-0.014
MHCII_jason_reseq	0.131	-0.243
Isoniazid02	-0.194	-0.712
Rifampicin4	-0.114	-0.612
Ethambutol3	0.203	-0.728
Meropenem3	0.2	-1.057
Vancomycin16	0.199	-0.374
Rv2680_day32	0.922	0.684
H37Rv_KO_MarP	0.691	0.662
hypoxia_3wks	0.267	-0.287
hypoxia_6wks	0.113	-0.593
glycerol	0.778	0.824
cholesterol	0.484	0.748
AJ	0.619	-0.035
Bibs02	0.699	-0.062
Bibs02c	0.153	-0.432
BL6	-0.19	0.126
BL6a	0.034	-0.303
BXD01	-0.018	-0.363
BXD010	-0.478	-1.584
BXD011	0.532	-0.526
BXD03	-0.408	-0.279
BXD04	0.008	0.1
BXD05	0.705	-0.333
BXD06	0.19	-0.437
BXD07	-0.019	-0.095
BXD08	0.208	0.219
BXD09	0.152	-0.244
CAST	0.596	0.33
CCcont	-0.048	-0.103
DS01	-0.169	-0.327
DS02	-0.091	-0.49
DS04	0.35	-0.717
DS0c	0.228	0.317
GP01	-0.031	-0.039
GP02	0.254	0.638
GP0c	0.087	0.876
NOD	0.939	0.264
NZO	0.853	0.652
PWK	0.811	0.293
H37Rv_KO_CtpC	1.414	0.357
H37Rv_KO_CtpD	0.125	1.091
H37Rv_KO_Rv1272	0.225	0.625
H37Rv_KO_SugABC	0.73	-0.046
H37Rv_KO_MbtN	-0.648	-0.612
Trans05	-0.013	0.447
macrophage_unactivated	0.044	-0.379
IL1	0.436	-0.3
Rapamycin	-0.117	-0.565
Tcell	0.381	-1.026
GMCSF	0.251	-0.486
IFNab	0.193	-0.937
IFNg	0.291	0.262
IFNg_GMCSF1	-0.016	0.082
Rv1432_day32	0.424	-0.121
Rv1565c_day32	0.033	0.104
secA2_input	-1.124	-1.079
delta_Rv3594	-0.021	0.133
delta_Rv3717	-0.082	-0.599
delta_Rv3811	0.062	0.006
delta_Rv0954	0.214	-0.039
PonA1	0.772	0.323
EccD1_KO	0.424	0.358
EspI_KO	0.69	0.371
PE35_KO	0.111	0.257
PPE68_KO	0.141	0.451
glycerol2	0.895	0.062
lignocerate	1.022	-0.069
oleate	0.499	0.387
phosphatidylcholine	0.868	-0.214
acetate	0.115	-0.075
glucAc	0.128	0.111
Rv0950ko	-0.555	-0.314
Rv1096ko	-0.745	0.054
Rv3684ko	-0.927	-0.563
delta_otsA_trehalose	0.123	-0.447