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 Rv2087/-:

update plot	correlation	link to info on gene
Rv2270/lppN	(cc=0.5536)	info on Rv2270/lppN
Rv3768/-	(cc=0.5282)	info on Rv3768/-
Rv1208/gpgS	(cc=0.5178)	info on Rv1208/gpgS
Rv2042c/-	(cc=0.515)	info on Rv2042c/-
Rv0692/-	(cc=0.5137)	info on Rv0692/-
Rv2652c/-	(cc=0.504)	info on Rv2652c/-
Rv2344c/dgt	(cc=0.5032)	info on Rv2344c/dgt
Rv1436/gap	(cc=0.503)	info on Rv1436/gap
Rv1236/sugA	(cc=0.5012)	info on Rv1236/sugA
Rv1023/eno	(cc=0.4919)	info on Rv1023/eno

Correlation of Rv2087/- with Rv1023/eno

Normalized LFCs for Rv2087/-:
(description and provenance of datasets)

	Rv2087/-	Rv1023/eno
Fe_supp_jason_reseq	2.344	0.415
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	0.089	0.0
Rifampicin4	1.289	0.0
Ethambutol3	2.23	0.0
Meropenem3	2.705	0.0
Vancomycin16	-0.17	0.0
Rv2680_day32	0.335	0.0
H37Rv_KO_MarP	0.0	-0.71
hypoxia_3wks	0.0	0.0
hypoxia_6wks	2.955	0.0
glycerol	-0.709	0.0
cholesterol	0.381	0.0
AJ	0.0	0.0
Bibs02	-0.642	0.0
Bibs02c	1.353	0.0
BL6	-0.439	0.0
BL6a	-0.696	0.0
BXD01	-0.458	0.0
BXD010	-0.45	0.0
BXD011	-0.448	0.0
BXD03	-0.475	0.0
BXD04	-0.434	0.0
BXD05	-0.339	0.0
BXD06	-0.469	0.0
BXD07	-0.486	0.0
BXD08	-0.467	0.0
BXD09	-0.494	0.0
CAST	0.0	0.0
CCcont	-0.24	0.149
DS01	-0.83	0.0
DS02	-0.764	0.0
DS04	-0.15	0.0
DS0c	-0.762	0.0
GP01	0.368	0.0
GP02	1.656	0.0
GP0c	1.835	0.0
NOD	2.151	0.0
NZO	-0.701	0.0
PWK	-0.494	0.0
H37Rv_KO_CtpC	-0.571	0.0
H37Rv_KO_CtpD	-0.098	0.0
H37Rv_KO_Rv1272	1.264	0.0
H37Rv_KO_SugABC	-0.159	0.0
H37Rv_KO_MbtN	1.968	0.0
Trans05	0.678	0.0
macrophage_unactivated	1.531	0.0
IL1	0.0	0.0
Rapamycin	2.081	0.0
Tcell	0.0	0.0
GMCSF	1.281	0.0
IFNab	0.417	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	1.838	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-2.248	-0.759
delta_Rv3594	0.684	0.0
delta_Rv3717	1.939	0.0
delta_Rv3811	1.228	0.0
delta_Rv0954	-0.375	0.0
PonA1	1.333	0.0
EccD1_KO	2.897	1.595
EspI_KO	1.292	1.934
PE35_KO	3.436	1.105
PPE68_KO	5.071	0.841
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	1.809	0.0
Rv1096ko	0.0	-0.793
Rv3684ko	-0.832	-0.861
delta_otsA_trehalose	0.382	0.0