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 Rv3306c/amiB1:

update plot	correlation	link to info on gene
Rv3899c/-	(cc=0.4083)	info on Rv3899c/-
Rv2505c/fadD35	(cc=0.4057)	info on Rv2505c/fadD35
Rv2976c/ung	(cc=0.3972)	info on Rv2976c/ung
Rv2453c/mobA	(cc=0.396)	info on Rv2453c/mobA
Rv3585/radA	(cc=0.3943)	info on Rv3585/radA
Rv2658c/-	(cc=0.3934)	info on Rv2658c/-
Rv2029c/pfkB	(cc=0.3902)	info on Rv2029c/pfkB
Rv0969/ctpV	(cc=0.3854)	info on Rv0969/ctpV
Rv1486c/-	(cc=0.3803)	info on Rv1486c/-
Rv0954/-	(cc=0.3801)	info on Rv0954/-

Correlation of Rv3306c/amiB1 with Rv1486c/-

Normalized LFCs for Rv3306c/amiB1:
(description and provenance of datasets)

	Rv3306c/amiB1	Rv1486c/-
Fe_supp_jason_reseq	-0.431	-0.081
low_pH_jason_reseq	-2.453	-1.501
NO_jason_reseq	-0.638	-1.197
B6_jason_reseq	-1.003	-1.249
MHCII_jason_reseq	-0.326	-1.146
Isoniazid02	-0.33	-0.918
Rifampicin4	0.236	1.243
Ethambutol3	2.512	2.707
Meropenem3	0.036	0.188
Vancomycin16	-0.698	0.886
Rv2680_day32	-0.575	-0.521
H37Rv_KO_MarP	0.837	-0.109
hypoxia_3wks	-1.459	0.267
hypoxia_6wks	-0.332	-0.591
glycerol	1.772	0.459
cholesterol	0.668	0.715
AJ	0.0	0.664
Bibs02	0.775	0.0
Bibs02c	0.747	0.396
BL6	-1.366	0.341
BL6a	0.508	0.23
BXD01	0.252	0.881
BXD010	-0.47	1.144
BXD011	-1.025	0.3
BXD03	0.52	0.782
BXD04	-0.676	-0.135
BXD05	0.78	0.911
BXD06	-0.107	0.578
BXD07	-0.082	0.435
BXD08	-0.35	0.672
BXD09	-0.679	0.433
CAST	-0.662	0.881
CCcont	-0.633	0.21
DS01	0.57	0.676
DS02	-0.175	-0.192
DS04	-0.659	0.305
DS0c	1.486	-0.104
GP01	-0.642	-0.978
GP02	-0.402	0.699
GP0c	-0.442	0.723
NOD	-0.088	-0.984
NZO	0.354	-0.657
PWK	-0.374	-0.256
H37Rv_KO_CtpC	-0.235	1.221
H37Rv_KO_CtpD	-0.075	0.61
H37Rv_KO_Rv1272	-0.557	2.207
H37Rv_KO_SugABC	1.561	1.103
H37Rv_KO_MbtN	-0.172	1.722
Trans05	0.996	1.618
macrophage_unactivated	0.925	0.795
IL1	0.78	0.724
Rapamycin	0.899	0.623
Tcell	0.117	0.899
GMCSF	2.688	1.545
IFNab	-0.339	0.514
IFNg	-0.099	0.673
IFNg_GMCSF1	-0.735	1.037
Rv1432_day32	0.498	-0.889
Rv1565c_day32	0.565	0.359
secA2_input	0.178	-0.733
delta_Rv3594	-0.968	0.642
delta_Rv3717	-0.312	0.43
delta_Rv3811	-0.271	1.09
delta_Rv0954	-1.796	0.601
PonA1	0.554	-0.108
EccD1_KO	1.138	0.562
EspI_KO	0.168	-0.242
PE35_KO	0.335	0.368
PPE68_KO	0.873	-0.106
glycerol2	0.391	1.108
lignocerate	-0.621	-0.865
oleate	-0.376	-0.043
phosphatidylcholine	-0.874	0.85
acetate	-0.554	-1.042
glucAc	-1.045	-0.995
Rv0950ko	-1.279	0.262
Rv1096ko	0.522	0.308
Rv3684ko	-1.055	0.383
delta_otsA_trehalose	1.026	1.266