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 Rv1141c/echA11:

update plot	correlation	link to info on gene
Rv1526c/-	(cc=0.5088)	info on Rv1526c/-
Rv2425c/-	(cc=0.488)	info on Rv2425c/-
Rv3016/lpqA	(cc=0.4866)	info on Rv3016/lpqA
Rv1787/PPE25	(cc=0.4835)	info on Rv1787/PPE25
Rv2147c/-	(cc=0.4766)	info on Rv2147c/-
Rv2345/-	(cc=0.4695)	info on Rv2345/-
Rv3190A/-	(cc=0.4649)	info on Rv3190A/-
Rv1000c/-	(cc=0.4537)	info on Rv1000c/-
Rv1981c/nrdF1	(cc=0.4511)	info on Rv1981c/nrdF1
Rv2300c/-	(cc=0.4476)	info on Rv2300c/-

Correlation of Rv1141c/echA11 with Rv3016/lpqA

Normalized LFCs for Rv1141c/echA11:
(description and provenance of datasets)

	Rv1141c/echA11	Rv3016/lpqA
Fe_supp_jason_reseq	-1.143	-1.077
low_pH_jason_reseq	-1.589	-0.43
NO_jason_reseq	0.365	-0.068
B6_jason_reseq	-0.567	-1.444
MHCII_jason_reseq	-0.357	-1.914
Isoniazid02	-0.201	0.087
Rifampicin4	0.872	-0.198
Ethambutol3	-0.078	0.277
Meropenem3	0.399	2.468
Vancomycin16	-0.151	-0.287
Rv2680_day32	-0.615	-0.452
H37Rv_KO_MarP	0.072	-0.078
hypoxia_3wks	-0.148	0.128
hypoxia_6wks	0.104	-0.069
glycerol	0.478	-0.895
cholesterol	-0.485	-1.184
AJ	0.121	-0.361
Bibs02	-0.152	-1.131
Bibs02c	1.144	0.614
BL6	0.694	1.181
BL6a	1.115	0.974
BXD01	0.577	0.239
BXD010	0.13	0.142
BXD011	2.406	0.567
BXD03	0.515	1.236
BXD04	0.477	0.65
BXD05	-0.083	0.302
BXD06	0.221	0.463
BXD07	0.805	0.681
BXD08	0.228	0.154
BXD09	0.496	0.076
CAST	0.582	0.025
CCcont	0.401	0.547
DS01	-0.031	-0.642
DS02	-0.244	-0.243
DS04	0.013	-0.157
DS0c	0.057	-0.872
GP01	1.232	0.932
GP02	0.471	0.241
GP0c	0.902	-0.372
NOD	0.496	-1.113
NZO	-0.361	-0.644
PWK	0.423	-0.59
H37Rv_KO_CtpC	0.81	0.393
H37Rv_KO_CtpD	1.174	0.523
H37Rv_KO_Rv1272	0.686	1.561
H37Rv_KO_SugABC	1.109	0.987
H37Rv_KO_MbtN	0.806	-0.222
Trans05	0.467	0.879
macrophage_unactivated	0.363	0.647
IL1	0.163	0.314
Rapamycin	0.129	0.779
Tcell	0.837	0.02
GMCSF	0.977	0.475
IFNab	0.021	0.481
IFNg	-0.115	0.297
IFNg_GMCSF1	0.955	0.798
Rv1432_day32	-0.292	-0.433
Rv1565c_day32	0.325	0.208
secA2_input	-0.063	0.38
delta_Rv3594	0.285	1.017
delta_Rv3717	0.159	0.254
delta_Rv3811	0.7	0.787
delta_Rv0954	0.424	0.373
PonA1	-0.504	-0.577
EccD1_KO	1.5	0.714
EspI_KO	1.483	0.311
PE35_KO	0.718	0.907
PPE68_KO	1.488	1.193
glycerol2	0.921	-0.172
lignocerate	1.108	0.045
oleate	1.231	-0.125
phosphatidylcholine	1.325	0.095
acetate	0.545	-0.386
glucAc	0.461	0.091
Rv0950ko	-0.353	0.44
Rv1096ko	0.103	0.042
Rv3684ko	-0.508	0.023
delta_otsA_trehalose	1.225	0.615