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 Rv1537/dinX:

update plot	correlation	link to info on gene
Rv1562c/treZ	(cc=0.451)	info on Rv1562c/treZ
Rv1061/-	(cc=0.4363)	info on Rv1061/-
Rv2689c/-	(cc=0.4333)	info on Rv2689c/-
Rv2306B/-	(cc=0.42)	info on Rv2306B/-
Rv0969/ctpV	(cc=0.4147)	info on Rv0969/ctpV
Rv1153c/omt	(cc=0.4081)	info on Rv1153c/omt
Rv1487/-	(cc=0.3945)	info on Rv1487/-
Rv3071/-	(cc=0.3919)	info on Rv3071/-
Rv1690/lprJ	(cc=0.3917)	info on Rv1690/lprJ
Rv3213c/-	(cc=0.3883)	info on Rv3213c/-

Correlation of Rv1537/dinX with Rv3071/-

Normalized LFCs for Rv1537/dinX:
(description and provenance of datasets)

	Rv1537/dinX	Rv3071/-
Fe_supp_jason_reseq	0.028	-1.132
low_pH_jason_reseq	-1.365	-0.465
NO_jason_reseq	0.27	0.228
B6_jason_reseq	0.02	0.127
MHCII_jason_reseq	0.432	0.015
Isoniazid02	0.18	-0.151
Rifampicin4	1.01	-0.252
Ethambutol3	0.212	0.106
Meropenem3	0.169	-0.301
Vancomycin16	0.419	-0.276
Rv2680_day32	0.42	1.237
H37Rv_KO_MarP	-0.178	-0.333
hypoxia_3wks	0.052	0.502
hypoxia_6wks	-0.29	0.148
glycerol	-0.091	-0.217
cholesterol	-0.048	-0.109
AJ	-0.077	-0.175
Bibs02	-1.044	-0.054
Bibs02c	0.199	2.422
BL6	-0.257	-0.768
BL6a	0.584	1.997
BXD01	0.649	0.707
BXD010	0.5	0.141
BXD011	-0.369	-0.265
BXD03	-0.261	0.407
BXD04	-0.07	0.288
BXD05	0.044	0.166
BXD06	-0.044	-0.04
BXD07	0.442	0.639
BXD08	0.29	0.164
BXD09	-0.513	-0.02
CAST	0.287	-0.521
CCcont	0.44	-0.234
DS01	0.176	0.524
DS02	-0.537	1.199
DS04	0.758	-0.438
DS0c	0.024	0.79
GP01	0.415	0.862
GP02	0.196	0.802
GP0c	-0.267	0.865
NOD	-1.002	-1.051
NZO	0.249	0.864
PWK	-0.065	0.267
H37Rv_KO_CtpC	0.339	1.279
H37Rv_KO_CtpD	-0.544	-0.136
H37Rv_KO_Rv1272	0.32	0.244
H37Rv_KO_SugABC	-0.685	0.254
H37Rv_KO_MbtN	-0.67	-0.046
Trans05	-0.252	1.116
macrophage_unactivated	1.439	0.331
IL1	-1.124	-0.08
Rapamycin	-0.353	0.476
Tcell	0.723	0.811
GMCSF	-1.331	-0.797
IFNab	-0.057	0.393
IFNg	-0.051	-0.072
IFNg_GMCSF1	0.057	-0.085
Rv1432_day32	-0.415	0.271
Rv1565c_day32	-0.415	0.142
secA2_input	-0.401	-0.136
delta_Rv3594	-0.717	0.581
delta_Rv3717	-0.654	-0.961
delta_Rv3811	0.156	-0.184
delta_Rv0954	-1.616	-0.705
PonA1	-0.34	-0.327
EccD1_KO	0.526	-0.464
EspI_KO	1.269	0.841
PE35_KO	0.545	-0.055
PPE68_KO	0.467	0.355
glycerol2	-0.106	-0.013
lignocerate	0.067	-0.279
oleate	-0.179	0.259
phosphatidylcholine	0.291	0.235
acetate	0.987	-0.738
glucAc	1.113	-1.034
Rv0950ko	-0.992	-0.344
Rv1096ko	0.772	0.109
Rv3684ko	0.589	0.668
delta_otsA_trehalose	2.96	2.528