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 Rv0359/-

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

	Rv0075/-	Rv0359/-
Fe_supp_jason_reseq	-0.153	0.095
low_pH_jason_reseq	-0.447	-1.012
NO_jason_reseq	0.097	0.837
B6_jason_reseq	0.662	0.692
MHCII_jason_reseq	1.083	1.3
Isoniazid02	0.825	0.764
Rifampicin4	0.265	0.097
Ethambutol3	1.492	0.086
Meropenem3	-0.273	0.109
Vancomycin16	-0.348	-0.17
Rv2680_day32	-0.169	-0.023
H37Rv_KO_MarP	0.46	0.272
hypoxia_3wks	0.255	-0.12
hypoxia_6wks	0.75	-0.079
glycerol	-0.285	0.453
cholesterol	0.12	-0.176
AJ	-0.222	0.363
Bibs02	0.481	0.277
Bibs02c	0.432	0.053
BL6	-0.236	-0.976
BL6a	0.192	-0.726
BXD01	-0.007	-0.705
BXD010	-0.372	-0.867
BXD011	-0.143	-0.706
BXD03	-0.42	-1.073
BXD04	-0.271	-1.555
BXD05	-0.077	-1.302
BXD06	0.178	-1.334
BXD07	-0.204	-1.084
BXD08	-0.3	-1.029
BXD09	-0.044	-1.134
CAST	0.012	0.657
CCcont	-0.505	-1.909
DS01	0.477	0.53
DS02	0.022	0.485
DS04	0.88	0.111
DS0c	0.83	0.528
GP01	-0.328	0.353
GP02	1.227	0.863
GP0c	-0.544	-0.377
NOD	0.573	0.135
NZO	-0.082	0.097
PWK	-0.199	0.115
H37Rv_KO_CtpC	-0.346	-1.181
H37Rv_KO_CtpD	0.099	-0.874
H37Rv_KO_Rv1272	0.103	-1.584
H37Rv_KO_SugABC	-0.301	-0.397
H37Rv_KO_MbtN	-0.8	-0.62
Trans05	0.059	-0.053
macrophage_unactivated	-0.846	-2.093
IL1	-0.392	-1.848
Rapamycin	0.025	-1.393
Tcell	-0.14	-1.092
GMCSF	-0.576	-1.09
IFNab	-0.659	-2.053
IFNg	-0.329	-1.05
IFNg_GMCSF1	-0.625	-0.594
Rv1432_day32	-0.24	0.786
Rv1565c_day32	-0.324	-0.547
secA2_input	0.412	0.38
delta_Rv3594	-0.875	-1.115
delta_Rv3717	-0.357	0.013
delta_Rv3811	-0.669	-1.166
delta_Rv0954	-0.199	-0.841
PonA1	-0.28	-0.262
EccD1_KO	0.086	0.062
EspI_KO	0.245	0.054
PE35_KO	-0.026	-0.747
PPE68_KO	0.355	-0.982
glycerol2	-0.024	-0.053
lignocerate	-0.094	-0.349
oleate	0.047	0.023
phosphatidylcholine	-0.221	-0.038
acetate	-0.128	-0.72
glucAc	-0.542	-0.134
Rv0950ko	-0.431	0.597
Rv1096ko	-0.486	0.881
Rv3684ko	-0.141	0.648
delta_otsA_trehalose	-0.064	-2.016