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 Rv0412c/-:

update plot	correlation	link to info on gene
Rv0410c/pknG	(cc=0.9791)	info on Rv0410c/pknG
Rv0411c/glnH	(cc=0.8605)	info on Rv0411c/glnH
Rv2097c/pafA	(cc=0.7896)	info on Rv2097c/pafA
Rv2115c/mpa	(cc=0.7468)	info on Rv2115c/mpa
Rv2844/-	(cc=0.6577)	info on Rv2844/-
Rv1002c/-	(cc=0.6477)	info on Rv1002c/-
Rv1122/gnd2	(cc=0.6298)	info on Rv1122/gnd2
Rv0180c/-	(cc=0.623)	info on Rv0180c/-
Rv1436/gap	(cc=0.6201)	info on Rv1436/gap
Rv1685c/-	(cc=0.5857)	info on Rv1685c/-

Correlation of Rv0412c/- with Rv1685c/-

Normalized LFCs for Rv0412c/-:
(description and provenance of datasets)

	Rv0412c/-	Rv1685c/-
Fe_supp_jason_reseq	0.218	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	-0.201	-0.551
Rifampicin4	-0.374	-0.653
Ethambutol3	-0.168	-0.461
Meropenem3	-0.165	-0.138
Vancomycin16	-0.366	-0.639
Rv2680_day32	-0.459	0.0
H37Rv_KO_MarP	-3.728	-1.964
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.0
cholesterol	0.0	1.123
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	0.127	0.127
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	1.662
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.194
DS0c	0.0	0.413
GP01	0.0	0.099
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	0.162
H37Rv_KO_CtpD	0.537	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.099
H37Rv_KO_MbtN	0.506	0.103
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
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	-0.045	0.816
delta_Rv3594	-0.211	0.402
delta_Rv3717	-0.174	0.0
delta_Rv3811	-0.205	0.205
delta_Rv0954	1.375	2.048
PonA1	4.458	1.154
EccD1_KO	-1.799	0.243
EspI_KO	-0.838	-0.456
PE35_KO	2.972	0.983
PPE68_KO	2.476	2.95
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	-1.134	-0.582
Rv1096ko	-0.09	-0.793
Rv3684ko	1.647	-1.916
delta_otsA_trehalose	-0.564	0.0