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 Rv0061c/-:

update plot	correlation	link to info on gene
Rv2631/-	(cc=0.5636)	info on Rv2631/-
Rv3354/-	(cc=0.5387)	info on Rv3354/-
Rv2636/-	(cc=0.5365)	info on Rv2636/-
Rv1367c/-	(cc=0.517)	info on Rv1367c/-
Rv1250/-	(cc=0.5106)	info on Rv1250/-
Rv1999c/-	(cc=0.5044)	info on Rv1999c/-
Rv2032/acg	(cc=0.4962)	info on Rv2032/acg
Rv1708/-	(cc=0.4926)	info on Rv1708/-
Rv0840c/pip	(cc=0.4887)	info on Rv0840c/pip
Rv0089/-	(cc=0.4845)	info on Rv0089/-

Correlation of Rv0061c/- with Rv2636/-

Normalized LFCs for Rv0061c/-:
(description and provenance of datasets)

	Rv0061c/-	Rv2636/-
Fe_supp_jason_reseq	-0.827	-0.073
low_pH_jason_reseq	0.09	-0.942
NO_jason_reseq	-0.89	0.071
B6_jason_reseq	0.974	1.243
MHCII_jason_reseq	0.728	1.783
Isoniazid02	0.096	-0.55
Rifampicin4	0.59	0.162
Ethambutol3	-0.264	0.417
Meropenem3	0.079	-1.06
Vancomycin16	0.175	-0.642
Rv2680_day32	0.882	1.092
H37Rv_KO_MarP	0.769	0.013
hypoxia_3wks	0.052	0.056
hypoxia_6wks	-0.171	-0.186
glycerol	-1.258	0.263
cholesterol	-0.425	0.048
AJ	-1.756	0.345
Bibs02	0.038	0.177
Bibs02c	-0.514	0.358
BL6	-1.953	-0.987
BL6a	-0.595	-0.442
BXD01	-0.876	-1.222
BXD010	-0.602	-0.989
BXD011	-1.819	-1.507
BXD03	-3.298	-1.037
BXD04	-1.33	-1.588
BXD05	-2.2	-0.968
BXD06	-2.022	-1.495
BXD07	-2.669	-1.077
BXD08	0.135	-0.781
BXD09	-1.533	-1.87
CAST	-0.489	0.174
CCcont	-0.805	-1.767
DS01	-0.051	0.399
DS02	0.599	0.578
DS04	-0.15	-0.409
DS0c	0.057	0.083
GP01	-0.726	-0.456
GP02	-1.692	-0.744
GP0c	-1.38	-0.677
NOD	-0.161	0.574
NZO	-0.747	0.126
PWK	-0.467	-0.057
H37Rv_KO_CtpC	-2.741	-1.77
H37Rv_KO_CtpD	-3.022	-0.581
H37Rv_KO_Rv1272	-0.934	-1.089
H37Rv_KO_SugABC	-1.279	-1.719
H37Rv_KO_MbtN	-2.135	-0.848
Trans05	1.568	-0.088
macrophage_unactivated	0.215	-0.653
IL1	-1.608	-0.445
Rapamycin	-1.743	-0.546
Tcell	-0.352	-0.867
GMCSF	-0.594	-0.446
IFNab	-2.769	-1.155
IFNg	-1.518	-0.136
IFNg_GMCSF1	0.053	-0.079
Rv1432_day32	0.505	-0.16
Rv1565c_day32	-0.602	0.062
secA2_input	0.199	1.133
delta_Rv3594	-2.894	-0.601
delta_Rv3717	-0.741	-0.271
delta_Rv3811	-1.553	-0.458
delta_Rv0954	-0.163	0.151
PonA1	-3.804	-0.324
EccD1_KO	-0.062	-0.151
EspI_KO	0.314	0.271
PE35_KO	0.983	-0.079
PPE68_KO	0.406	-0.266
glycerol2	-0.099	0.534
lignocerate	-0.235	0.498
oleate	-0.781	0.303
phosphatidylcholine	-0.581	0.709
acetate	-0.047	0.156
glucAc	0.07	0.155
Rv0950ko	-0.479	-0.027
Rv1096ko	-1.264	-0.25
Rv3684ko	-1.32	-0.662
delta_otsA_trehalose	-1.007	0.719