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 Rv1764/-

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

	Rv2479c/-	Rv1764/-
Fe_supp_jason_reseq	-0.535	-0.393
low_pH_jason_reseq	-0.529	-0.475
NO_jason_reseq	-0.15	0.331
B6_jason_reseq	-0.465	-0.603
MHCII_jason_reseq	-0.222	-0.257
Isoniazid02	-0.09	0.0
Rifampicin4	0.782	0.964
Ethambutol3	0.507	0.833
Meropenem3	-0.24	-0.294
Vancomycin16	-0.196	-0.077
Rv2680_day32	0.27	0.157
H37Rv_KO_MarP	-0.188	-0.248
hypoxia_3wks	0.459	0.383
hypoxia_6wks	0.063	0.088
glycerol	-0.543	-0.72
cholesterol	0.151	0.124
AJ	1.467	1.264
Bibs02	1.211	1.08
Bibs02c	1.878	1.59
BL6	0.362	0.259
BL6a	1.179	1.073
BXD01	0.748	0.67
BXD010	1.05	1.037
BXD011	0.984	0.89
BXD03	0.814	0.728
BXD04	0.671	0.531
BXD05	1.219	1.044
BXD06	0.659	0.553
BXD07	0.867	0.745
BXD08	0.595	0.581
BXD09	0.812	0.742
CAST	1.51	1.216
CCcont	0.356	0.065
DS01	1.237	0.979
DS02	1.123	0.926
DS04	1.37	1.14
DS0c	1.292	1.153
GP01	1.356	1.199
GP02	1.464	1.269
GP0c	0.962	0.7
NOD	1.572	1.396
NZO	1.269	1.006
PWK	1.468	1.132
H37Rv_KO_CtpC	1.011	0.959
H37Rv_KO_CtpD	0.925	0.976
H37Rv_KO_Rv1272	0.739	0.547
H37Rv_KO_SugABC	0.917	0.862
H37Rv_KO_MbtN	0.659	0.544
Trans05	1.013	0.816
macrophage_unactivated	-0.814	-0.792
IL1	-0.765	-0.516
Rapamycin	-1.132	-0.749
Tcell	-1.714	-1.391
GMCSF	-0.581	-0.422
IFNab	-1.04	-0.892
IFNg	-0.711	-0.575
IFNg_GMCSF1	-0.355	-0.698
Rv1432_day32	0.378	0.389
Rv1565c_day32	0.145	0.21
secA2_input	0.18	0.027
delta_Rv3594	0.093	-0.323
delta_Rv3717	-0.034	-0.233
delta_Rv3811	0.0	-0.367
delta_Rv0954	0.553	0.472
PonA1	-0.021	-0.204
EccD1_KO	0.151	0.493
EspI_KO	0.799	1.138
PE35_KO	0.796	0.875
PPE68_KO	0.557	0.595
glycerol2	-0.733	-0.538
lignocerate	-0.438	-0.374
oleate	-0.829	-0.621
phosphatidylcholine	-0.648	-0.43
acetate	0.035	0.033
glucAc	0.179	-0.131
Rv0950ko	0.081	0.103
Rv1096ko	0.081	0.546
Rv3684ko	-0.596	-0.576
delta_otsA_trehalose	0.083	0.359