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 Rv0410c/pknG

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

	Rv0412c/-	Rv0410c/pknG
Fe_supp_jason_reseq	0.218	0.598
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	-0.201
Rifampicin4	-0.374	-0.374
Ethambutol3	-0.168	-0.168
Meropenem3	-0.165	-0.165
Vancomycin16	-0.366	-0.366
Rv2680_day32	-0.459	-0.459
H37Rv_KO_MarP	-3.728	-3.779
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	0.0
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	1.157
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.0
DS0c	0.0	0.217
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	0.162
H37Rv_KO_CtpD	0.537	0.241
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	0.167
delta_Rv3594	-0.211	0.0
delta_Rv3717	-0.174	0.0
delta_Rv3811	-0.205	0.0
delta_Rv0954	1.375	0.876
PonA1	4.458	4.022
EccD1_KO	-1.799	-0.865
EspI_KO	-0.838	-1.275
PE35_KO	2.972	2.774
PPE68_KO	2.476	2.627
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.229
glucAc	0.0	0.0
Rv0950ko	-1.134	-0.739
Rv1096ko	-0.09	0.389
Rv3684ko	1.647	1.611
delta_otsA_trehalose	-0.564	-0.133