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 Rv0515/-:

update plot	correlation	link to info on gene
Rv0336/-	(cc=0.9551)	info on Rv0336/-
Rv3380c/-	(cc=0.7268)	info on Rv3380c/-
Rv1764/-	(cc=0.7143)	info on Rv1764/-
Rv2106/-	(cc=0.6829)	info on Rv2106/-
Rv2479c/-	(cc=0.6822)	info on Rv2479c/-
Rv2355/-	(cc=0.6801)	info on Rv2355/-
Rv2814c/-	(cc=0.6765)	info on Rv2814c/-
Rv3326/-	(cc=0.6755)	info on Rv3326/-
Rv2167c/-	(cc=0.674)	info on Rv2167c/-
Rv3185/-	(cc=0.6689)	info on Rv3185/-

Correlation of Rv0515/- with Rv0336/-

Normalized LFCs for Rv0515/-:
(description and provenance of datasets)

	Rv0515/-	Rv0336/-
Fe_supp_jason_reseq	0.237	0.0
low_pH_jason_reseq	-1.26	-1.445
NO_jason_reseq	0.228	0.221
B6_jason_reseq	-0.109	-0.394
MHCII_jason_reseq	0.314	0.203
Isoniazid02	0.141	0.074
Rifampicin4	0.788	0.685
Ethambutol3	0.118	0.111
Meropenem3	0.763	0.601
Vancomycin16	0.257	0.207
Rv2680_day32	-0.13	-0.097
H37Rv_KO_MarP	-0.04	-0.025
hypoxia_3wks	0.211	0.267
hypoxia_6wks	-0.223	-0.361
glycerol	-0.079	-0.079
cholesterol	0.076	0.043
AJ	0.598	0.553
Bibs02	0.633	0.562
Bibs02c	1.128	0.934
BL6	-0.053	-0.042
BL6a	0.643	0.4
BXD01	0.086	0.064
BXD010	0.351	0.131
BXD011	-0.225	-0.161
BXD03	0.355	0.355
BXD04	0.502	0.501
BXD05	0.253	0.286
BXD06	-0.04	-0.07
BXD07	0.11	0.103
BXD08	0.184	0.146
BXD09	0.037	0.008
CAST	0.677	0.532
CCcont	-0.109	-0.184
DS01	0.977	0.662
DS02	0.531	0.233
DS04	0.651	0.49
DS0c	0.503	0.149
GP01	0.358	0.475
GP02	0.564	0.591
GP0c	0.023	0.068
NOD	0.61	0.472
NZO	0.669	0.485
PWK	0.827	0.821
H37Rv_KO_CtpC	0.934	0.905
H37Rv_KO_CtpD	0.69	0.604
H37Rv_KO_Rv1272	0.317	0.296
H37Rv_KO_SugABC	0.466	0.205
H37Rv_KO_MbtN	0.597	0.534
Trans05	0.393	0.455
macrophage_unactivated	-0.609	-0.603
IL1	-0.884	-0.581
Rapamycin	-0.562	-0.503
Tcell	-1.18	-1.098
GMCSF	-0.333	-0.164
IFNab	-1.004	-1.037
IFNg	-0.19	-0.246
IFNg_GMCSF1	-0.575	-0.242
Rv1432_day32	0.274	0.269
Rv1565c_day32	-0.234	0.028
secA2_input	0.013	-0.034
delta_Rv3594	-0.768	-0.785
delta_Rv3717	-0.574	-0.686
delta_Rv3811	-0.672	-0.781
delta_Rv0954	-0.638	-0.853
PonA1	-0.517	-0.488
EccD1_KO	0.388	-0.181
EspI_KO	0.248	0.06
PE35_KO	0.335	0.093
PPE68_KO	0.083	-0.022
glycerol2	0.249	0.0
lignocerate	0.234	0.116
oleate	-0.135	-0.136
phosphatidylcholine	0.111	0.014
acetate	0.165	-0.043
glucAc	0.338	0.308
Rv0950ko	0.452	0.398
Rv1096ko	0.265	0.012
Rv3684ko	0.373	0.354
delta_otsA_trehalose	0.594	0.144