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 Rv2679/echA15:

update plot	correlation	link to info on gene
Rv0342/iniA	(cc=0.6294)	info on Rv0342/iniA
Rv3406/-	(cc=0.5782)	info on Rv3406/-
Rv2577/-	(cc=0.5777)	info on Rv2577/-
Rv3077/-	(cc=0.559)	info on Rv3077/-
Rv0968/-	(cc=0.5541)	info on Rv0968/-
Rv3323c/moaX	(cc=0.5225)	info on Rv3323c/moaX
Rv1726/-	(cc=0.5212)	info on Rv1726/-
Rv3329/-	(cc=0.5175)	info on Rv3329/-
Rv0160c/PE4	(cc=0.5145)	info on Rv0160c/PE4
Rv3435c/-	(cc=0.5112)	info on Rv3435c/-

Correlation of Rv2679/echA15 with Rv3329/-

Normalized LFCs for Rv2679/echA15:
(description and provenance of datasets)

	Rv2679/echA15	Rv3329/-
Fe_supp_jason_reseq	-0.857	0.0
low_pH_jason_reseq	-1.198	0.33
NO_jason_reseq	1.142	0.257
B6_jason_reseq	-0.225	0.714
MHCII_jason_reseq	0.652	0.049
Isoniazid02	-2.239	-2.423
Rifampicin4	0.214	0.598
Ethambutol3	-1.268	-1.639
Meropenem3	-1.438	-2.211
Vancomycin16	-0.873	-0.947
Rv2680_day32	0.16	-0.046
H37Rv_KO_MarP	0.085	-0.354
hypoxia_3wks	-0.319	0.323
hypoxia_6wks	-0.66	0.418
glycerol	0.48	0.294
cholesterol	0.102	0.128
AJ	0.388	0.576
Bibs02	-0.71	0.114
Bibs02c	0.1	-0.471
BL6	0.269	-0.095
BL6a	-0.696	-0.357
BXD01	0.183	0.024
BXD010	-0.586	-0.183
BXD011	0.013	-0.136
BXD03	-0.669	0.412
BXD04	-0.318	-0.07
BXD05	-0.124	0.47
BXD06	-0.331	-0.013
BXD07	0.032	0.197
BXD08	0.514	0.321
BXD09	-0.61	-0.079
CAST	-0.445	0.28
CCcont	0.019	-0.159
DS01	-0.12	0.137
DS02	-0.347	0.444
DS04	0.201	0.035
DS0c	-0.925	0.079
GP01	0.265	0.022
GP02	1.004	-0.011
GP0c	0.0	-0.716
NOD	0.41	-0.063
NZO	0.202	0.656
PWK	0.32	0.459
H37Rv_KO_CtpC	0.118	-0.471
H37Rv_KO_CtpD	1.037	-0.278
H37Rv_KO_Rv1272	-0.179	-0.856
H37Rv_KO_SugABC	-0.594	-0.375
H37Rv_KO_MbtN	0.237	-0.939
Trans05	-0.359	-0.265
macrophage_unactivated	-0.994	-0.281
IL1	0.329	0.098
Rapamycin	0.377	0.199
Tcell	-0.267	-0.042
GMCSF	0.692	0.069
IFNab	0.054	-0.375
IFNg	-0.168	0.088
IFNg_GMCSF1	0.258	0.041
Rv1432_day32	0.096	-0.288
Rv1565c_day32	-0.321	0.627
secA2_input	0.603	0.343
delta_Rv3594	-0.387	-0.314
delta_Rv3717	0.248	-0.258
delta_Rv3811	-1.472	-0.421
delta_Rv0954	-0.076	0.094
PonA1	-0.062	0.264
EccD1_KO	-0.454	-0.428
EspI_KO	0.157	0.1
PE35_KO	-0.362	-0.7
PPE68_KO	0.118	-0.115
glycerol2	0.387	0.113
lignocerate	0.716	0.244
oleate	0.795	0.658
phosphatidylcholine	0.794	0.314
acetate	0.073	-0.07
glucAc	0.036	-0.458
Rv0950ko	0.627	0.054
Rv1096ko	0.609	0.262
Rv3684ko	0.544	-0.118
delta_otsA_trehalose	1.186	0.232