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 Rv2479c/-:

update plot	correlation	link to info on gene
Rv2814c/-	(cc=0.9867)	info on Rv2814c/-
Rv3185/-	(cc=0.9805)	info on Rv3185/-
Rv2167c/-	(cc=0.9764)	info on Rv2167c/-
Rv1756c/-	(cc=0.976)	info on Rv1756c/-
Rv2106/-	(cc=0.9716)	info on Rv2106/-
Rv3326/-	(cc=0.971)	info on Rv3326/-
Rv1369c/-	(cc=0.9707)	info on Rv1369c/-
Rv1764/-	(cc=0.968)	info on Rv1764/-
Rv2279/-	(cc=0.9617)	info on Rv2279/-
Rv2649/-	(cc=0.9609)	info on Rv2649/-

Correlation of Rv2479c/- with Rv2167c/-

Normalized LFCs for Rv2479c/-:
(description and provenance of datasets)

	Rv2479c/-	Rv2167c/-
Fe_supp_jason_reseq	-0.535	-0.235
low_pH_jason_reseq	-0.529	-0.423
NO_jason_reseq	-0.15	0.213
B6_jason_reseq	-0.465	-0.395
MHCII_jason_reseq	-0.222	0.056
Isoniazid02	-0.09	-0.17
Rifampicin4	0.782	0.701
Ethambutol3	0.507	0.447
Meropenem3	-0.24	-0.344
Vancomycin16	-0.196	-0.294
Rv2680_day32	0.27	0.289
H37Rv_KO_MarP	-0.188	-0.196
hypoxia_3wks	0.459	0.494
hypoxia_6wks	0.063	-0.031
glycerol	-0.543	-0.611
cholesterol	0.151	0.148
AJ	1.467	1.501
Bibs02	1.211	1.264
Bibs02c	1.878	1.763
BL6	0.362	0.439
BL6a	1.179	1.217
BXD01	0.748	0.778
BXD010	1.05	0.951
BXD011	0.984	0.82
BXD03	0.814	0.844
BXD04	0.671	0.626
BXD05	1.219	1.094
BXD06	0.659	0.621
BXD07	0.867	0.892
BXD08	0.595	0.529
BXD09	0.812	0.84
CAST	1.51	1.49
CCcont	0.356	0.285
DS01	1.237	1.134
DS02	1.123	1.045
DS04	1.37	1.304
DS0c	1.292	1.31
GP01	1.356	1.294
GP02	1.464	1.392
GP0c	0.962	0.82
NOD	1.572	1.424
NZO	1.269	1.272
PWK	1.468	1.3
H37Rv_KO_CtpC	1.011	0.892
H37Rv_KO_CtpD	0.925	0.867
H37Rv_KO_Rv1272	0.739	0.537
H37Rv_KO_SugABC	0.917	0.886
H37Rv_KO_MbtN	0.659	0.664
Trans05	1.013	0.915
macrophage_unactivated	-0.814	-1.155
IL1	-0.765	-0.777
Rapamycin	-1.132	-0.684
Tcell	-1.714	-1.678
GMCSF	-0.581	-0.396
IFNab	-1.04	-1.058
IFNg	-0.711	-0.657
IFNg_GMCSF1	-0.355	-0.921
Rv1432_day32	0.378	0.189
Rv1565c_day32	0.145	0.253
secA2_input	0.18	0.188
delta_Rv3594	0.093	-0.115
delta_Rv3717	-0.034	-0.02
delta_Rv3811	0.0	-0.162
delta_Rv0954	0.553	0.344
PonA1	-0.021	-0.167
EccD1_KO	0.151	-0.053
EspI_KO	0.799	0.97
PE35_KO	0.796	0.7
PPE68_KO	0.557	0.493
glycerol2	-0.733	-1.009
lignocerate	-0.438	-0.837
oleate	-0.829	-1.18
phosphatidylcholine	-0.648	-0.919
acetate	0.035	-0.47
glucAc	0.179	-0.084
Rv0950ko	0.081	0.042
Rv1096ko	0.081	0.151
Rv3684ko	-0.596	-0.635
delta_otsA_trehalose	0.083	0.344