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 Rv0036c/-:

update plot	correlation	link to info on gene
Rv1992c/ctpG	(cc=0.5606)	info on Rv1992c/ctpG
Rv2831/echA16	(cc=0.5496)	info on Rv2831/echA16
Rv2811/-	(cc=0.5483)	info on Rv2811/-
Rv1839c/vapB13	(cc=0.522)	info on Rv1839c/vapB13
Rv0133/-	(cc=0.5195)	info on Rv0133/-
Rv1936/-	(cc=0.5057)	info on Rv1936/-
Rv1773c/-	(cc=0.5039)	info on Rv1773c/-
Rv2174/mptA	(cc=0.4965)	info on Rv2174/mptA
Rv2913c/-	(cc=0.4864)	info on Rv2913c/-
Rv2917/-	(cc=0.4797)	info on Rv2917/-

Correlation of Rv0036c/- with Rv1936/-

Normalized LFCs for Rv0036c/-:
(description and provenance of datasets)

	Rv0036c/-	Rv1936/-
Fe_supp_jason_reseq	-0.346	-0.69
low_pH_jason_reseq	-1.297	0.0
NO_jason_reseq	0.202	0.57
B6_jason_reseq	0.25	-0.495
MHCII_jason_reseq	0.134	0.541
Isoniazid02	0.652	-0.048
Rifampicin4	0.717	-0.295
Ethambutol3	1.378	0.124
Meropenem3	0.537	-0.114
Vancomycin16	0.873	-0.271
Rv2680_day32	-3.314	-0.947
H37Rv_KO_MarP	0.148	-0.161
hypoxia_3wks	0.463	-0.076
hypoxia_6wks	-0.969	-0.357
glycerol	1.205	0.699
cholesterol	0.106	0.493
AJ	0.304	0.264
Bibs02	0.229	-0.55
Bibs02c	0.653	0.199
BL6	-1.378	-1.195
BL6a	-0.296	0.475
BXD01	-1.055	-0.489
BXD010	-1.216	-0.504
BXD011	0.465	-0.016
BXD03	-1.212	0.006
BXD04	-0.4	0.581
BXD05	-0.13	0.25
BXD06	-0.199	-0.028
BXD07	-0.133	-0.495
BXD08	-0.436	-0.157
BXD09	-0.657	0.181
CAST	-0.901	-0.148
CCcont	-1.863	-1.145
DS01	0.375	-0.346
DS02	0.403	0.009
DS04	-0.18	0.235
DS0c	-0.38	-0.091
GP01	1.587	0.883
GP02	0.505	-0.423
GP0c	0.469	-0.203
NOD	-0.633	0.0
NZO	-0.22	-0.341
PWK	0.47	0.45
H37Rv_KO_CtpC	-0.298	0.0
H37Rv_KO_CtpD	-0.256	-1.074
H37Rv_KO_Rv1272	-0.716	0.384
H37Rv_KO_SugABC	0.088	-0.059
H37Rv_KO_MbtN	0.111	-0.031
Trans05	0.164	-0.4
macrophage_unactivated	-0.3	-0.619
IL1	-0.599	0.056
Rapamycin	0.681	0.153
Tcell	-1.111	-0.319
GMCSF	0.945	0.335
IFNab	0.033	0.094
IFNg	-0.834	0.246
IFNg_GMCSF1	0.493	0.346
Rv1432_day32	0.379	-0.356
Rv1565c_day32	0.479	0.603
secA2_input	0.459	-0.753
delta_Rv3594	0.33	-0.047
delta_Rv3717	0.886	-0.138
delta_Rv3811	-0.159	0.11
delta_Rv0954	1.416	0.808
PonA1	0.263	0.457
EccD1_KO	-0.082	0.309
EspI_KO	-1.112	0.145
PE35_KO	0.365	-0.155
PPE68_KO	0.49	0.141
glycerol2	-0.376	-0.325
lignocerate	-1.436	-0.315
oleate	-0.451	0.142
phosphatidylcholine	-0.784	0.081
acetate	-2.018	-0.342
glucAc	-2.881	-0.827
Rv0950ko	0.075	0.534
Rv1096ko	-0.178	0.274
Rv3684ko	0.285	0.213
delta_otsA_trehalose	0.786	0.767