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 Rv2953/-:

update plot	correlation	link to info on gene
Rv0713/-	(cc=0.5446)	info on Rv0713/-
Rv2399c/cysT	(cc=0.5027)	info on Rv2399c/cysT
Rv3116/moeB2	(cc=0.492)	info on Rv3116/moeB2
Rv2429/ahpD	(cc=0.4832)	info on Rv2429/ahpD
Rv2400c/subI	(cc=0.4525)	info on Rv2400c/subI
Rv1810/-	(cc=0.4422)	info on Rv1810/-
Rv0431/-	(cc=0.442)	info on Rv0431/-
Rv2221c/glnE	(cc=0.4334)	info on Rv2221c/glnE
Rv2284/lipM	(cc=0.4193)	info on Rv2284/lipM
Rv2397c/cysA1	(cc=0.4094)	info on Rv2397c/cysA1

Correlation of Rv2953/- with Rv2397c/cysA1

Normalized LFCs for Rv2953/-:
(description and provenance of datasets)

	Rv2953/-	Rv2397c/cysA1
Fe_supp_jason_reseq	1.462	0.549
low_pH_jason_reseq	-0.663	1.051
NO_jason_reseq	-0.614	1.42
B6_jason_reseq	0.252	-0.153
MHCII_jason_reseq	0.553	-0.135
Isoniazid02	-0.786	-0.351
Rifampicin4	0.217	0.29
Ethambutol3	-0.344	0.0
Meropenem3	-1.232	-0.454
Vancomycin16	-0.225	1.244
Rv2680_day32	-0.382	0.0
H37Rv_KO_MarP	-0.164	-0.763
hypoxia_3wks	0.618	0.0
hypoxia_6wks	0.413	0.0
glycerol	-0.715	0.0
cholesterol	-0.334	0.0
AJ	-1.171	0.0
Bibs02	0.925	0.0
Bibs02c	0.394	0.0
BL6	0.657	0.0
BL6a	0.504	0.0
BXD01	0.543	0.0
BXD010	0.275	0.0
BXD011	0.15	0.0
BXD03	-0.29	0.0
BXD04	0.153	0.0
BXD05	0.51	0.0
BXD06	0.359	0.0
BXD07	0.0	0.0
BXD08	0.285	0.0
BXD09	0.026	0.0
CAST	-0.602	0.0
CCcont	0.54	0.149
DS01	0.116	0.0
DS02	0.616	0.0
DS04	0.55	0.0
DS0c	0.328	0.0
GP01	-0.489	0.0
GP02	-1.465	0.0
GP0c	0.146	0.0
NOD	-0.68	0.0
NZO	-0.522	0.0
PWK	-0.347	0.0
H37Rv_KO_CtpC	-0.252	0.0
H37Rv_KO_CtpD	-0.878	0.127
H37Rv_KO_Rv1272	-0.741	0.141
H37Rv_KO_SugABC	0.166	0.0
H37Rv_KO_MbtN	0.617	0.0
Trans05	0.009	0.249
macrophage_unactivated	0.407	0.0
IL1	-0.042	0.0
Rapamycin	-0.224	0.0
Tcell	0.668	0.0
GMCSF	0.074	0.0
IFNab	-0.021	0.0
IFNg	-0.337	0.0
IFNg_GMCSF1	-0.091	0.0
Rv1432_day32	-0.458	0.0
Rv1565c_day32	0.662	0.0
secA2_input	-0.897	-1.45
delta_Rv3594	0.307	0.742
delta_Rv3717	0.029	0.0
delta_Rv3811	-0.158	1.008
delta_Rv0954	-0.137	1.383
PonA1	0.426	2.266
EccD1_KO	-0.701	-4.124
EspI_KO	-0.719	-3.904
PE35_KO	0.709	3.605
PPE68_KO	0.403	0.816
glycerol2	0.594	0.0
lignocerate	0.427	0.0
oleate	0.05	0.0
phosphatidylcholine	0.445	0.0
acetate	-0.788	0.0
glucAc	-0.298	0.0
Rv0950ko	-0.657	-2.545
Rv1096ko	-1.243	-3.987
Rv3684ko	-1.251	-2.885
delta_otsA_trehalose	0.322	0.0