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 Rv2904c/rplS:

update plot	correlation	link to info on gene
Rv2965c/kdtB	(cc=0.6413)	info on Rv2965c/kdtB
Rv2603c/-	(cc=0.6369)	info on Rv2603c/-
Rv0651/rplJ	(cc=0.6333)	info on Rv0651/rplJ
Rv1636/TB15.3	(cc=0.6254)	info on Rv1636/TB15.3
Rv2135c/-	(cc=0.6217)	info on Rv2135c/-
Rv0736/rslA	(cc=0.5603)	info on Rv0736/rslA
Rv1457c/-	(cc=0.5588)	info on Rv1457c/-
Rv3245c/mtrB	(cc=0.5418)	info on Rv3245c/mtrB
Rv1275/lprC	(cc=0.4768)	info on Rv1275/lprC
Rv2358/smtB	(cc=0.4717)	info on Rv2358/smtB

Correlation of Rv2904c/rplS with Rv2135c/-

Normalized LFCs for Rv2904c/rplS:
(description and provenance of datasets)

	Rv2904c/rplS	Rv2135c/-
Fe_supp_jason_reseq	2.262	2.559
low_pH_jason_reseq	0.0	-0.634
NO_jason_reseq	0.69	-0.995
B6_jason_reseq	0.0	-0.421
MHCII_jason_reseq	0.0	-0.37
Isoniazid02	-0.201	-2.187
Rifampicin4	0.341	-0.49
Ethambutol3	1.44	2.38
Meropenem3	-0.165	-0.399
Vancomycin16	0.0	0.424
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.586	-3.718
hypoxia_3wks	0.0	-1.511
hypoxia_6wks	0.0	-0.791
glycerol	0.0	1.758
cholesterol	0.0	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.0	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	1.082	2.382
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.194	0.0
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	0.162	0.0
H37Rv_KO_CtpD	0.127	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.099	0.099
H37Rv_KO_MbtN	0.196	0.196
Trans05	0.0	0.0
macrophage_unactivated	0.0	-0.761
IL1	-0.409	-1.124
Rapamycin	-0.424	-1.163
Tcell	-0.45	-1.235
GMCSF	0.0	-1.001
IFNab	0.0	0.0
IFNg	-0.369	-1.013
IFNg_GMCSF1	-0.434	-1.191
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	3.389	4.169
delta_Rv3594	-0.459	-1.158
delta_Rv3717	-0.243	-2.555
delta_Rv3811	-0.617	-2.149
delta_Rv0954	0.22	1.49
PonA1	-0.346	2.001
EccD1_KO	0.954	-2.375
EspI_KO	0.433	-2.059
PE35_KO	-0.767	0.067
PPE68_KO	1.133	0.889
glycerol2	0.0	-0.82
lignocerate	0.0	-1.033
oleate	0.0	-1.202
phosphatidylcholine	0.0	-1.188
acetate	0.0	0.69
glucAc	0.0	0.229
Rv0950ko	0.874	1.658
Rv1096ko	-0.697	0.344
Rv3684ko	0.337	1.346
delta_otsA_trehalose	0.654	1.021