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 Rv1999c/-

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

	Rv0061c/-	Rv1999c/-
Fe_supp_jason_reseq	-0.827	0.032
low_pH_jason_reseq	0.09	-0.609
NO_jason_reseq	-0.89	0.239
B6_jason_reseq	0.974	-0.061
MHCII_jason_reseq	0.728	0.316
Isoniazid02	0.096	0.188
Rifampicin4	0.59	0.628
Ethambutol3	-0.264	0.17
Meropenem3	0.079	-0.29
Vancomycin16	0.175	0.032
Rv2680_day32	0.882	0.398
H37Rv_KO_MarP	0.769	-0.042
hypoxia_3wks	0.052	-0.227
hypoxia_6wks	-0.171	-0.397
glycerol	-1.258	-0.499
cholesterol	-0.425	-0.351
AJ	-1.756	-0.097
Bibs02	0.038	0.007
Bibs02c	-0.514	-0.088
BL6	-1.953	-0.925
BL6a	-0.595	-0.676
BXD01	-0.876	-0.679
BXD010	-0.602	-0.928
BXD011	-1.819	-0.795
BXD03	-3.298	-0.578
BXD04	-1.33	-0.7
BXD05	-2.2	-1.079
BXD06	-2.022	-0.89
BXD07	-2.669	-0.664
BXD08	0.135	-0.867
BXD09	-1.533	-0.907
CAST	-0.489	-0.35
CCcont	-0.805	-0.974
DS01	-0.051	0.053
DS02	0.599	0.118
DS04	-0.15	0.333
DS0c	0.057	-0.515
GP01	-0.726	0.218
GP02	-1.692	-0.615
GP0c	-1.38	-0.365
NOD	-0.161	-0.202
NZO	-0.747	-0.228
PWK	-0.467	-0.359
H37Rv_KO_CtpC	-2.741	-1.177
H37Rv_KO_CtpD	-3.022	-0.724
H37Rv_KO_Rv1272	-0.934	-0.021
H37Rv_KO_SugABC	-1.279	-0.338
H37Rv_KO_MbtN	-2.135	-0.29
Trans05	1.568	-0.035
macrophage_unactivated	0.215	-0.038
IL1	-1.608	-0.522
Rapamycin	-1.743	-0.623
Tcell	-0.352	-0.238
GMCSF	-0.594	0.356
IFNab	-2.769	-0.78
IFNg	-1.518	-0.505
IFNg_GMCSF1	0.053	0.072
Rv1432_day32	0.505	0.248
Rv1565c_day32	-0.602	0.122
secA2_input	0.199	-0.374
delta_Rv3594	-2.894	-0.021
delta_Rv3717	-0.741	0.216
delta_Rv3811	-1.553	0.326
delta_Rv0954	-0.163	-0.335
PonA1	-3.804	-0.308
EccD1_KO	-0.062	0.296
EspI_KO	0.314	-0.088
PE35_KO	0.983	0.63
PPE68_KO	0.406	0.31
glycerol2	-0.099	0.765
lignocerate	-0.235	0.848
oleate	-0.781	0.119
phosphatidylcholine	-0.581	0.899
acetate	-0.047	0.648
glucAc	0.07	0.925
Rv0950ko	-0.479	0.199
Rv1096ko	-1.264	-0.13
Rv3684ko	-1.32	0.445
delta_otsA_trehalose	-1.007	0.475