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 Rv2275/-:

update plot	correlation	link to info on gene
Rv2274A/mazE8	(cc=0.7556)	info on Rv2274A/mazE8
Rv1498c/-	(cc=0.5612)	info on Rv1498c/-
Rv1896c/-	(cc=0.5429)	info on Rv1896c/-
Rv2353c/PPE39	(cc=0.541)	info on Rv2353c/PPE39
Rv2778c/-	(cc=0.5281)	info on Rv2778c/-
Rv2436/rbsK	(cc=0.5189)	info on Rv2436/rbsK
Rv0845/-	(cc=0.5135)	info on Rv0845/-
Rv0088/-	(cc=0.5002)	info on Rv0088/-
Rv1521/fadD25	(cc=0.4988)	info on Rv1521/fadD25
Rv0260c/-	(cc=0.4974)	info on Rv0260c/-

Correlation of Rv2275/- with Rv2274A/mazE8

Normalized LFCs for Rv2275/-:
(description and provenance of datasets)

	Rv2275/-	Rv2274A/mazE8
Fe_supp_jason_reseq	0.827	-1.073
low_pH_jason_reseq	0.617	0.408
NO_jason_reseq	-0.244	0.457
B6_jason_reseq	-0.7	-0.58
MHCII_jason_reseq	0.61	-0.18
Isoniazid02	0.153	0.377
Rifampicin4	0.975	1.083
Ethambutol3	0.188	0.043
Meropenem3	0.352	0.238
Vancomycin16	0.539	0.581
Rv2680_day32	-0.471	0.359
H37Rv_KO_MarP	0.08	0.26
hypoxia_3wks	0.128	-0.048
hypoxia_6wks	-0.288	0.048
glycerol	-0.453	-1.419
cholesterol	0.184	-1.219
AJ	0.294	0.382
Bibs02	1.13	2.072
Bibs02c	-0.47	-2.099
BL6	0.864	0.275
BL6a	0.528	0.765
BXD01	1.203	1.466
BXD010	0.816	0.109
BXD011	1.745	1.765
BXD03	1.025	0.769
BXD04	0.0	0.811
BXD05	0.615	1.881
BXD06	0.39	0.952
BXD07	0.602	1.15
BXD08	0.871	2.183
BXD09	1.087	1.695
CAST	-1.054	-1.246
CCcont	1.179	0.729
DS01	0.503	1.018
DS02	0.142	1.827
DS04	0.929	1.668
DS0c	-0.231	0.591
GP01	-0.354	-0.935
GP02	-0.523	-1.187
GP0c	-0.986	-0.61
NOD	-0.239	-0.903
NZO	1.306	0.543
PWK	-1.232	-2.342
H37Rv_KO_CtpC	1.545	1.727
H37Rv_KO_CtpD	1.255	0.769
H37Rv_KO_Rv1272	2.719	2.315
H37Rv_KO_SugABC	2.705	3.786
H37Rv_KO_MbtN	1.924	2.954
Trans05	1.729	1.811
macrophage_unactivated	1.215	1.398
IL1	-0.089	1.353
Rapamycin	1.114	2.157
Tcell	0.873	1.743
GMCSF	0.51	1.888
IFNab	0.088	0.426
IFNg	0.516	0.997
IFNg_GMCSF1	-1.656	-0.556
Rv1432_day32	-0.411	-0.426
Rv1565c_day32	0.3	-0.382
secA2_input	-1.681	-1.035
delta_Rv3594	-0.725	-1.263
delta_Rv3717	-0.927	-1.195
delta_Rv3811	-0.796	-1.88
delta_Rv0954	-1.708	-1.616
PonA1	-0.936	-1.255
EccD1_KO	2.111	1.756
EspI_KO	1.443	0.228
PE35_KO	1.17	0.563
PPE68_KO	1.872	1.126
glycerol2	0.0	-0.076
lignocerate	0.505	-0.359
oleate	0.0	-0.227
phosphatidylcholine	0.415	0.426
acetate	1.014	-0.474
glucAc	0.487	-0.524
Rv0950ko	-1.354	-0.1
Rv1096ko	-0.835	0.253
Rv3684ko	-1.179	0.409
delta_otsA_trehalose	-0.836	-1.615