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 Rv0075/-:

update plot	correlation	link to info on gene
Rv1156/-	(cc=0.5369)	info on Rv1156/-
Rv0840c/pip	(cc=0.5237)	info on Rv0840c/pip
Rv0218/-	(cc=0.5207)	info on Rv0218/-
Rv0674/-	(cc=0.5135)	info on Rv0674/-
Rv1367c/-	(cc=0.5062)	info on Rv1367c/-
Rv2232/ptkA	(cc=0.5018)	info on Rv2232/ptkA
Rv1368/lprF	(cc=0.4952)	info on Rv1368/lprF
Rv0846c/-	(cc=0.4937)	info on Rv0846c/-
Rv0359/-	(cc=0.4924)	info on Rv0359/-
Rv1105/-	(cc=0.4913)	info on Rv1105/-

Correlation of Rv0075/- with Rv1367c/-

Normalized LFCs for Rv0075/-:
(description and provenance of datasets)

	Rv0075/-	Rv1367c/-
Fe_supp_jason_reseq	-0.153	-0.668
low_pH_jason_reseq	-0.447	-0.621
NO_jason_reseq	0.097	0.102
B6_jason_reseq	0.662	0.32
MHCII_jason_reseq	1.083	0.499
Isoniazid02	0.825	0.322
Rifampicin4	0.265	0.574
Ethambutol3	1.492	1.446
Meropenem3	-0.273	0.0
Vancomycin16	-0.348	0.265
Rv2680_day32	-0.169	-0.364
H37Rv_KO_MarP	0.46	0.176
hypoxia_3wks	0.255	0.136
hypoxia_6wks	0.75	-0.438
glycerol	-0.285	-0.073
cholesterol	0.12	-0.132
AJ	-0.222	-0.314
Bibs02	0.481	-0.845
Bibs02c	0.432	-0.4
BL6	-0.236	-1.556
BL6a	0.192	-0.476
BXD01	-0.007	-0.868
BXD010	-0.372	-0.751
BXD011	-0.143	-0.447
BXD03	-0.42	-1.169
BXD04	-0.271	-0.891
BXD05	-0.077	-0.533
BXD06	0.178	-0.746
BXD07	-0.204	-0.944
BXD08	-0.3	-0.416
BXD09	-0.044	-1.607
CAST	0.012	-0.624
CCcont	-0.505	-1.029
DS01	0.477	-0.156
DS02	0.022	-0.044
DS04	0.88	-0.094
DS0c	0.83	0.035
GP01	-0.328	-0.481
GP02	1.227	0.1
GP0c	-0.544	-0.119
NOD	0.573	0.026
NZO	-0.082	0.329
PWK	-0.199	-0.655
H37Rv_KO_CtpC	-0.346	0.075
H37Rv_KO_CtpD	0.099	-0.046
H37Rv_KO_Rv1272	0.103	-0.075
H37Rv_KO_SugABC	-0.301	-0.189
H37Rv_KO_MbtN	-0.8	-1.426
Trans05	0.059	0.417
macrophage_unactivated	-0.846	-0.789
IL1	-0.392	-0.875
Rapamycin	0.025	-1.154
Tcell	-0.14	-1.225
GMCSF	-0.576	-0.929
IFNab	-0.659	-1.433
IFNg	-0.329	-1.443
IFNg_GMCSF1	-0.625	-0.619
Rv1432_day32	-0.24	-0.593
Rv1565c_day32	-0.324	0.485
secA2_input	0.412	0.842
delta_Rv3594	-0.875	-1.069
delta_Rv3717	-0.357	-0.668
delta_Rv3811	-0.669	-0.625
delta_Rv0954	-0.199	-0.756
PonA1	-0.28	-1.04
EccD1_KO	0.086	0.599
EspI_KO	0.245	0.345
PE35_KO	-0.026	0.554
PPE68_KO	0.355	0.211
glycerol2	-0.024	0.448
lignocerate	-0.094	-0.057
oleate	0.047	0.595
phosphatidylcholine	-0.221	0.682
acetate	-0.128	-0.344
glucAc	-0.542	0.346
Rv0950ko	-0.431	-0.081
Rv1096ko	-0.486	0.106
Rv3684ko	-0.141	0.085
delta_otsA_trehalose	-0.064	-0.511