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 Rv1515c/-

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

	Rv3007c/-	Rv1515c/-
Fe_supp_jason_reseq	-0.69	0.294
low_pH_jason_reseq	0.136	-0.468
NO_jason_reseq	-0.168	0.354
B6_jason_reseq	0.09	0.121
MHCII_jason_reseq	0.131	0.321
Isoniazid02	-0.194	-2.028
Rifampicin4	-0.114	0.441
Ethambutol3	0.203	-1.255
Meropenem3	0.2	1.061
Vancomycin16	0.199	-1.101
Rv2680_day32	0.922	-0.526
H37Rv_KO_MarP	0.691	0.454
hypoxia_3wks	0.267	0.116
hypoxia_6wks	0.113	0.0
glycerol	0.778	0.974
cholesterol	0.484	0.214
AJ	0.619	0.603
Bibs02	0.699	0.747
Bibs02c	0.153	0.721
BL6	-0.19	0.756
BL6a	0.034	-0.046
BXD01	-0.018	0.167
BXD010	-0.478	0.189
BXD011	0.532	0.262
BXD03	-0.408	0.089
BXD04	0.008	0.561
BXD05	0.705	0.089
BXD06	0.19	0.059
BXD07	-0.019	0.0
BXD08	0.208	0.197
BXD09	0.152	0.122
CAST	0.596	0.639
CCcont	-0.048	0.824
DS01	-0.169	0.205
DS02	-0.091	0.279
DS04	0.35	0.325
DS0c	0.228	-0.556
GP01	-0.031	0.146
GP02	0.254	1.806
GP0c	0.087	0.682
NOD	0.939	-0.104
NZO	0.853	-0.292
PWK	0.811	0.74
H37Rv_KO_CtpC	1.414	0.918
H37Rv_KO_CtpD	0.125	-0.807
H37Rv_KO_Rv1272	0.225	0.815
H37Rv_KO_SugABC	0.73	2.314
H37Rv_KO_MbtN	-0.648	-0.072
Trans05	-0.013	0.574
macrophage_unactivated	0.044	0.691
IL1	0.436	0.513
Rapamycin	-0.117	-0.601
Tcell	0.381	0.251
GMCSF	0.251	0.393
IFNab	0.193	0.079
IFNg	0.291	0.462
IFNg_GMCSF1	-0.016	-1.012
Rv1432_day32	0.424	0.263
Rv1565c_day32	0.033	1.079
secA2_input	-1.124	-0.432
delta_Rv3594	-0.021	0.817
delta_Rv3717	-0.082	0.953
delta_Rv3811	0.062	1.487
delta_Rv0954	0.214	-0.277
PonA1	0.772	1.125
EccD1_KO	0.424	0.322
EspI_KO	0.69	0.605
PE35_KO	0.111	0.805
PPE68_KO	0.141	0.0
glycerol2	0.895	0.897
lignocerate	1.022	1.001
oleate	0.499	0.267
phosphatidylcholine	0.868	0.674
acetate	0.115	0.838
glucAc	0.128	0.888
Rv0950ko	-0.555	-1.203
Rv1096ko	-0.745	-1.764
Rv3684ko	-0.927	-1.834
delta_otsA_trehalose	0.123	-0.4