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 Rv3330/dacB1:

update plot	correlation	link to info on gene
Rv2190c/-	(cc=0.5632)	info on Rv2190c/-
Rv2696c/-	(cc=0.5628)	info on Rv2696c/-
Rv1006/-	(cc=0.5406)	info on Rv1006/-
Rv1159/pimE	(cc=0.5217)	info on Rv1159/pimE
Rv0431/-	(cc=0.5135)	info on Rv0431/-
Rv3790/dprE1	(cc=0.5052)	info on Rv3790/dprE1
Rv2525c/-	(cc=0.5012)	info on Rv2525c/-
Rv1111c/-	(cc=0.4934)	info on Rv1111c/-
Rv0497/-	(cc=0.4811)	info on Rv0497/-
Rv1701/-	(cc=0.4745)	info on Rv1701/-

Correlation of Rv3330/dacB1 with Rv0497/-

Normalized LFCs for Rv3330/dacB1:
(description and provenance of datasets)

	Rv3330/dacB1	Rv0497/-
Fe_supp_jason_reseq	-0.104	2.155
low_pH_jason_reseq	-0.55	-1.887
NO_jason_reseq	-0.381	0.858
B6_jason_reseq	-0.431	-1.375
MHCII_jason_reseq	0.622	-1.155
Isoniazid02	-0.125	-1.622
Rifampicin4	-2.364	-1.66
Ethambutol3	0.266	-0.19
Meropenem3	-1.579	-1.154
Vancomycin16	-0.515	-2.555
Rv2680_day32	-0.82	1.148
H37Rv_KO_MarP	-1.795	-3.88
hypoxia_3wks	0.271	-1.244
hypoxia_6wks	-0.509	-1.038
glycerol	0.173	-1.24
cholesterol	0.537	0.748
AJ	-0.343	0.487
Bibs02	0.866	-0.697
Bibs02c	0.211	-1.773
BL6	0.492	0.731
BL6a	0.032	-0.755
BXD01	0.0	0.209
BXD010	-0.201	0.518
BXD011	0.336	0.54
BXD03	0.296	0.377
BXD04	0.262	0.524
BXD05	0.631	-0.354
BXD06	0.032	0.248
BXD07	0.482	0.786
BXD08	0.291	-0.4
BXD09	0.0	0.622
CAST	-0.637	-2.853
CCcont	0.605	1.016
DS01	0.149	-1.001
DS02	-0.49	-0.129
DS04	0.136	-0.115
DS0c	0.327	-0.826
GP01	0.723	1.52
GP02	0.751	-0.025
GP0c	0.649	1.579
NOD	-0.439	-2.39
NZO	-0.116	0.727
PWK	0.566	2.552
H37Rv_KO_CtpC	0.245	0.092
H37Rv_KO_CtpD	-0.649	0.235
H37Rv_KO_Rv1272	0.515	0.824
H37Rv_KO_SugABC	0.664	2.212
H37Rv_KO_MbtN	0.92	3.528
Trans05	0.268	1.205
macrophage_unactivated	0.505	-0.514
IL1	0.199	0.703
Rapamycin	0.635	0.157
Tcell	0.339	-2.346
GMCSF	0.784	1.31
IFNab	0.227	2.53
IFNg	0.778	0.136
IFNg_GMCSF1	0.952	1.618
Rv1432_day32	0.714	2.092
Rv1565c_day32	-0.167	-1.93
secA2_input	-0.291	-2.038
delta_Rv3594	-0.132	1.086
delta_Rv3717	-0.159	2.536
delta_Rv3811	-0.342	0.828
delta_Rv0954	-0.012	-0.282
PonA1	0.572	-0.912
EccD1_KO	-0.585	-0.109
EspI_KO	-1.469	-0.719
PE35_KO	-1.581	-1.485
PPE68_KO	-1.065	-0.806
glycerol2	-0.111	-0.177
lignocerate	0.106	-0.32
oleate	-0.293	0.457
phosphatidylcholine	-0.398	-0.176
acetate	0.263	0.0
glucAc	0.211	0.119
Rv0950ko	-0.805	-0.615
Rv1096ko	-0.09	0.305
Rv3684ko	-0.648	-0.157
delta_otsA_trehalose	0.825	-0.118