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 Rv2461c/clpP1:

update plot	correlation	link to info on gene
Rv2454c/-	(cc=0.7951)	info on Rv2454c/-
Rv2455c/-	(cc=0.7138)	info on Rv2455c/-
Rv3215/entC	(cc=0.6483)	info on Rv3215/entC
Rv1540/-	(cc=0.6185)	info on Rv1540/-
Rv1350/fabG2	(cc=0.4394)	info on Rv1350/fabG2
Rv2309c/-	(cc=0.3922)	info on Rv2309c/-
Rv0584/-	(cc=0.3809)	info on Rv0584/-
Rv1767/-	(cc=0.3758)	info on Rv1767/-
Rv0816c/thiX	(cc=0.3741)	info on Rv0816c/thiX
Rv1322A/-	(cc=0.3733)	info on Rv1322A/-

Correlation of Rv2461c/clpP1 with Rv0816c/thiX

Normalized LFCs for Rv2461c/clpP1:
(description and provenance of datasets)

	Rv2461c/clpP1	Rv0816c/thiX
Fe_supp_jason_reseq	0.0	1.301
low_pH_jason_reseq	0.0	0.801
NO_jason_reseq	0.0	-1.998
B6_jason_reseq	0.0	2.046
MHCII_jason_reseq	0.0	-1.721
Isoniazid02	0.0	0.057
Rifampicin4	0.0	1.706
Ethambutol3	0.0	0.587
Meropenem3	0.0	-0.241
Vancomycin16	0.0	1.242
Rv2680_day32	0.0	1.995
H37Rv_KO_MarP	0.0	-1.017
hypoxia_3wks	0.0	-0.048
hypoxia_6wks	0.288	-1.102
glycerol	0.0	0.132
cholesterol	0.0	-1.203
AJ	0.0	0.94
Bibs02	0.0	-0.87
Bibs02c	0.0	0.223
BL6	0.0	0.448
BL6a	0.0	-0.418
BXD01	0.0	0.112
BXD010	0.0	1.402
BXD011	0.0	0.056
BXD03	0.0	-0.794
BXD04	0.0	-0.405
BXD05	0.0	0.545
BXD06	0.0	0.571
BXD07	0.0	0.882
BXD08	0.0	-0.919
BXD09	0.0	-0.098
CAST	0.0	0.077
CCcont	0.0	0.649
DS01	0.0	-0.885
DS02	0.0	-0.996
DS04	0.0	0.982
DS0c	0.0	-0.178
GP01	0.0	0.255
GP02	0.0	-0.631
GP0c	0.248	1.872
NOD	0.0	-1.653
NZO	0.0	-0.393
PWK	0.0	-0.209
H37Rv_KO_CtpC	0.0	-0.532
H37Rv_KO_CtpD	0.0	-1.542
H37Rv_KO_Rv1272	0.0	-1.936
H37Rv_KO_SugABC	0.0	-1.96
H37Rv_KO_MbtN	0.0	-1.711
Trans05	0.0	1.157
macrophage_unactivated	0.0	-0.218
IL1	0.0	-0.205
Rapamycin	0.0	-0.546
Tcell	0.0	0.215
GMCSF	0.0	1.172
IFNab	0.0	0.481
IFNg	0.0	-0.962
IFNg_GMCSF1	0.0	0.99
Rv1432_day32	0.0	-0.213
Rv1565c_day32	0.0	-0.419
secA2_input	-1.929	-3.397
delta_Rv3594	0.0	-0.3
delta_Rv3717	0.0	-0.331
delta_Rv3811	0.0	-0.034
delta_Rv0954	0.0	-3.014
PonA1	0.0	-0.506
EccD1_KO	0.0	-0.533
EspI_KO	0.0	0.0
PE35_KO	0.0	-1.17
PPE68_KO	0.0	-1.376
glycerol2	0.0	1.076
lignocerate	0.0	0.834
oleate	0.0	0.656
phosphatidylcholine	0.0	1.185
acetate	0.63	1.952
glucAc	0.0	1.131
Rv0950ko	0.0	1.511
Rv1096ko	0.0	2.289
Rv3684ko	0.0	1.536
delta_otsA_trehalose	0.0	0.062