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 Rv0180c/-

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

	Rv0412c/-	Rv0180c/-
Fe_supp_jason_reseq	0.218	1.796
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	-1.101
Rifampicin4	-0.374	-2.762
Ethambutol3	-0.168	-0.761
Meropenem3	-0.165	-2.105
Vancomycin16	-0.366	-1.499
Rv2680_day32	-0.459	0.0
H37Rv_KO_MarP	-3.728	-3.151
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	4.308
cholesterol	0.0	3.09
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.735
BL6	0.0	0.0
BL6a	0.0	0.0
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	0.439
CCcont	1.082	0.0
DS01	0.0	3.713
DS02	0.0	0.597
DS04	0.0	0.533
DS0c	0.0	1.788
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.952
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	0.0
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	-0.221
delta_Rv3594	-0.211	-0.211
delta_Rv3717	-0.174	-0.174
delta_Rv3811	-0.205	-0.205
delta_Rv0954	1.375	0.163
PonA1	4.458	2.587
EccD1_KO	-1.799	0.0
EspI_KO	-0.838	0.0
PE35_KO	2.972	5.507
PPE68_KO	2.476	3.846
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	-2.831
Rv1096ko	-0.09	0.856
Rv3684ko	1.647	1.254
delta_otsA_trehalose	-0.564	-0.34