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 Rv0068/-:

update plot	correlation	link to info on gene
Rv3762c/-	(cc=0.4881)	info on Rv3762c/-
Rv0369c/-	(cc=0.472)	info on Rv0369c/-
Rv1496/-	(cc=0.4695)	info on Rv1496/-
Rv3108/-	(cc=0.4644)	info on Rv3108/-
Rv0844c/narL	(cc=0.4525)	info on Rv0844c/narL
Rv1517/-	(cc=0.4492)	info on Rv1517/-
Rv2151c/ftsQ	(cc=0.4403)	info on Rv2151c/ftsQ
Rv2758c/vapB21	(cc=0.4365)	info on Rv2758c/vapB21
Rv3398c/idsA1	(cc=0.434)	info on Rv3398c/idsA1
Rv3828c/-	(cc=0.432)	info on Rv3828c/-

Correlation of Rv0068/- with Rv3762c/-

Normalized LFCs for Rv0068/-:
(description and provenance of datasets)

	Rv0068/-	Rv3762c/-
Fe_supp_jason_reseq	1.209	-0.243
low_pH_jason_reseq	-0.487	0.054
NO_jason_reseq	0.055	-0.218
B6_jason_reseq	-0.62	-0.8
MHCII_jason_reseq	-1.187	-1.219
Isoniazid02	0.067	-0.258
Rifampicin4	-0.309	-0.019
Ethambutol3	-0.159	1.102
Meropenem3	-0.188	0.109
Vancomycin16	0.3	0.188
Rv2680_day32	0.158	-0.848
H37Rv_KO_MarP	0.93	0.306
hypoxia_3wks	0.179	0.255
hypoxia_6wks	0.203	0.399
glycerol	-0.205	0.155
cholesterol	0.727	0.289
AJ	0.101	0.291
Bibs02	-0.657	0.083
Bibs02c	-0.796	0.0
BL6	0.515	0.664
BL6a	0.0	0.26
BXD01	0.503	0.66
BXD010	0.304	0.107
BXD011	0.0	0.16
BXD03	0.949	0.515
BXD04	0.801	1.163
BXD05	-0.03	0.169
BXD06	0.348	0.483
BXD07	0.108	0.306
BXD08	0.26	0.437
BXD09	0.031	0.326
CAST	-0.369	0.22
CCcont	0.836	0.151
DS01	-0.337	0.077
DS02	-0.424	0.154
DS04	-0.103	-0.247
DS0c	0.17	0.085
GP01	0.117	0.343
GP02	-0.307	-0.317
GP0c	-0.289	-0.062
NOD	-0.19	0.41
NZO	-0.461	0.319
PWK	0.578	0.257
H37Rv_KO_CtpC	0.568	0.021
H37Rv_KO_CtpD	1.114	1.191
H37Rv_KO_Rv1272	0.267	-0.057
H37Rv_KO_SugABC	1.087	0.694
H37Rv_KO_MbtN	0.72	0.397
Trans05	0.198	-0.118
macrophage_unactivated	0.912	0.442
IL1	0.629	0.255
Rapamycin	0.451	-0.377
Tcell	1.271	0.544
GMCSF	0.388	0.441
IFNab	0.444	0.175
IFNg	0.214	0.468
IFNg_GMCSF1	0.17	0.44
Rv1432_day32	0.519	0.177
Rv1565c_day32	0.25	-0.776
secA2_input	0.111	0.025
delta_Rv3594	-0.338	-0.314
delta_Rv3717	-0.703	-0.082
delta_Rv3811	-0.265	0.07
delta_Rv0954	-0.651	0.295
PonA1	0.639	0.072
EccD1_KO	0.372	-0.497
EspI_KO	-0.436	-0.684
PE35_KO	0.175	-0.828
PPE68_KO	0.157	-0.614
glycerol2	0.595	0.275
lignocerate	0.401	0.224
oleate	0.55	0.713
phosphatidylcholine	0.525	0.359
acetate	-0.219	0.0
glucAc	-0.089	0.306
Rv0950ko	0.467	0.706
Rv1096ko	0.926	0.519
Rv3684ko	-0.406	0.203
delta_otsA_trehalose	-0.913	-1.242