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 Rv3241c/-:

update plot	correlation	link to info on gene
Rv0712/-	(cc=0.4472)	info on Rv0712/-
Rv0242c/fabG4	(cc=0.4154)	info on Rv0242c/fabG4
Rv0241c/htdX	(cc=0.4078)	info on Rv0241c/htdX
Rv3160c/-	(cc=0.3979)	info on Rv3160c/-
Rv3704c/gshA	(cc=0.3631)	info on Rv3704c/gshA
Rv2407/-	(cc=0.3609)	info on Rv2407/-
Rv0391/metZ	(cc=0.3566)	info on Rv0391/metZ
Rv3213c/-	(cc=0.3551)	info on Rv3213c/-
Rv1537/dinX	(cc=0.3547)	info on Rv1537/dinX
Rv1596/nadC	(cc=0.3522)	info on Rv1596/nadC

Correlation of Rv3241c/- with Rv3213c/-

Normalized LFCs for Rv3241c/-:
(description and provenance of datasets)

	Rv3241c/-	Rv3213c/-
Fe_supp_jason_reseq	-0.205	-0.404
low_pH_jason_reseq	-1.429	-0.085
NO_jason_reseq	-0.966	-0.205
B6_jason_reseq	-0.505	-0.524
MHCII_jason_reseq	0.012	-0.067
Isoniazid02	-0.614	-0.263
Rifampicin4	0.542	0.022
Ethambutol3	0.009	0.051
Meropenem3	0.15	-0.062
Vancomycin16	-0.382	0.045
Rv2680_day32	0.469	0.981
H37Rv_KO_MarP	0.137	-0.047
hypoxia_3wks	-0.343	-1.069
hypoxia_6wks	-1.117	-1.416
glycerol	-1.084	-0.563
cholesterol	-0.835	-0.031
AJ	0.39	-0.829
Bibs02	0.083	-0.808
Bibs02c	-1.043	-1.413
BL6	0.122	1.303
BL6a	-0.776	-0.92
BXD01	-0.154	-0.108
BXD010	-0.286	0.181
BXD011	-0.284	-0.166
BXD03	-0.31	0.359
BXD04	-1.042	0.533
BXD05	-0.277	0.029
BXD06	-0.344	-0.039
BXD07	-0.301	0.115
BXD08	-0.486	-0.347
BXD09	-0.569	0.0
CAST	-0.345	-0.227
CCcont	0.286	0.355
DS01	-1.006	-1.205
DS02	-1.438	-0.373
DS04	-0.982	-0.1
DS0c	0.222	-0.047
GP01	0.908	2.03
GP02	-0.427	1.043
GP0c	0.599	-0.009
NOD	1.054	-0.872
NZO	-0.225	0.368
PWK	0.909	-0.337
H37Rv_KO_CtpC	0.088	0.188
H37Rv_KO_CtpD	-0.941	0.226
H37Rv_KO_Rv1272	-0.159	-0.219
H37Rv_KO_SugABC	-0.329	-0.305
H37Rv_KO_MbtN	0.625	-0.134
Trans05	-0.876	0.009
macrophage_unactivated	0.931	0.278
IL1	0.113	0.228
Rapamycin	0.187	0.138
Tcell	0.437	0.218
GMCSF	-1.088	-0.248
IFNab	0.931	-0.32
IFNg	0.414	0.265
IFNg_GMCSF1	-0.305	0.0
Rv1432_day32	-0.705	-0.502
Rv1565c_day32	-0.667	-1.38
secA2_input	-0.205	-0.153
delta_Rv3594	-0.113	-0.272
delta_Rv3717	-0.315	-0.516
delta_Rv3811	-0.608	-0.302
delta_Rv0954	0.328	-0.037
PonA1	-0.764	-0.344
EccD1_KO	0.802	0.322
EspI_KO	0.222	0.913
PE35_KO	-0.426	-0.636
PPE68_KO	-0.227	-0.496
glycerol2	0.149	1.389
lignocerate	-0.701	1.508
oleate	-0.641	-0.614
phosphatidylcholine	-1.475	1.148
acetate	0.095	1.207
glucAc	0.317	1.174
Rv0950ko	0.211	0.757
Rv1096ko	0.6	0.157
Rv3684ko	1.287	-0.626
delta_otsA_trehalose	2.036	2.496