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 Rv0455c/-:

update plot	correlation	link to info on gene
Rv3274c/fadE25	(cc=0.6419)	info on Rv3274c/fadE25
Rv1379/pyrR	(cc=0.6323)	info on Rv1379/pyrR
Rv3588c/canB	(cc=0.531)	info on Rv3588c/canB
Rv1078/pra	(cc=0.5176)	info on Rv1078/pra
Rv2195/qcrA	(cc=0.5081)	info on Rv2195/qcrA
Rv2928/tesA	(cc=0.4896)	info on Rv2928/tesA
Rv3902c/-	(cc=0.4888)	info on Rv3902c/-
Rv1458c/-	(cc=0.4814)	info on Rv1458c/-
Rv2524c/fas	(cc=0.474)	info on Rv2524c/fas
Rv2941/fadD28	(cc=0.4619)	info on Rv2941/fadD28

Correlation of Rv0455c/- with Rv1078/pra

Normalized LFCs for Rv0455c/-:
(description and provenance of datasets)

	Rv0455c/-	Rv1078/pra
Fe_supp_jason_reseq	3.939	0.766
low_pH_jason_reseq	0.211	0.0
NO_jason_reseq	-0.362	0.0
B6_jason_reseq	-0.153	0.0
MHCII_jason_reseq	-0.135	0.0
Isoniazid02	0.167	0.563
Rifampicin4	-0.341	0.073
Ethambutol3	0.27	3.374
Meropenem3	0.0	0.189
Vancomycin16	-0.334	0.143
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	4.219	-0.43
hypoxia_3wks	-1.511	-0.706
hypoxia_6wks	-0.791	-1.865
glycerol	0.0	0.0
cholesterol	0.0	0.276
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.238
BL6a	0.0	0.544
BXD01	0.0	0.13
BXD010	0.0	0.128
BXD011	0.54	0.0
BXD03	0.0	0.135
BXD04	0.0	0.0
BXD05	0.0	0.256
BXD06	0.0	0.366
BXD07	0.0	0.264
BXD08	0.0	0.0
BXD09	0.0	0.69
CAST	0.0	0.0
CCcont	2.716	2.847
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.37	1.192
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.446
H37Rv_KO_CtpD	0.445	0.348
H37Rv_KO_Rv1272	0.0	0.141
H37Rv_KO_SugABC	0.189	1.534
H37Rv_KO_MbtN	0.103	1.52
Trans05	0.131	0.0
macrophage_unactivated	0.0	1.196
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.45
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	1.273	1.442
delta_Rv3594	-1.597	2.177
delta_Rv3717	-0.143	1.453
delta_Rv3811	-1.423	2.223
delta_Rv0954	-2.762	-1.667
PonA1	-3.142	-1.399
EccD1_KO	-0.595	-2.687
EspI_KO	-1.435	-3.2
PE35_KO	1.085	-1.651
PPE68_KO	0.0	-1.629
glycerol2	0.0	0.649
lignocerate	0.0	-1.266
oleate	0.0	-0.802
phosphatidylcholine	0.0	-1.964
acetate	0.0	-0.133
glucAc	0.0	-0.264
Rv0950ko	-3.169	-3.395
Rv1096ko	-2.868	-4.515
Rv3684ko	-4.169	-3.688
delta_otsA_trehalose	0.0	0.409