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 Rv0411c/glnH

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

	Rv0412c/-	Rv0411c/glnH
Fe_supp_jason_reseq	0.218	0.923
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	-0.383
Rifampicin4	-0.374	-0.712
Ethambutol3	-0.168	-0.32
Meropenem3	-0.165	-0.315
Vancomycin16	-0.366	-0.698
Rv2680_day32	-0.459	-0.554
H37Rv_KO_MarP	-3.728	-3.512
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.0
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	0.198
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.127	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	1.43
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.0
DS0c	0.0	1.455
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	0.688
H37Rv_KO_CtpD	0.537	0.348
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.506	0.283
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	-0.477
delta_Rv3594	-0.211	-0.211
delta_Rv3717	-0.174	-0.174
delta_Rv3811	-0.205	-0.205
delta_Rv0954	1.375	1.292
PonA1	4.458	4.34
EccD1_KO	-1.799	1.059
EspI_KO	-0.838	1.146
PE35_KO	2.972	4.311
PPE68_KO	2.476	4.163
glycerol2	0.0	-0.531
lignocerate	0.0	-0.462
oleate	0.0	-0.537
phosphatidylcholine	0.0	-0.531
acetate	0.0	-0.63
glucAc	0.0	-0.392
Rv0950ko	-1.134	-1.523
Rv1096ko	-0.09	0.0
Rv3684ko	1.647	1.772
delta_otsA_trehalose	-0.564	-1.275