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 Rv0232/-:

update plot	correlation	link to info on gene
Rv0921/-	(cc=0.6382)	info on Rv0921/-
Rv0230c/php	(cc=0.6058)	info on Rv0230c/php
Rv1501/-	(cc=0.5498)	info on Rv1501/-
Rv3329/-	(cc=0.5448)	info on Rv3329/-
Rv0194/-	(cc=0.5273)	info on Rv0194/-
Rv0934/pstS1	(cc=0.524)	info on Rv0934/pstS1
Rv3473c/bpoA	(cc=0.5225)	info on Rv3473c/bpoA
Rv0083/-	(cc=0.5221)	info on Rv0083/-
Rv3026c/-	(cc=0.5137)	info on Rv3026c/-
Rv3389c/htdY	(cc=0.5036)	info on Rv3389c/htdY

Correlation of Rv0232/- with Rv0194/-

Normalized LFCs for Rv0232/-:
(description and provenance of datasets)

	Rv0232/-	Rv0194/-
Fe_supp_jason_reseq	-0.499	-0.058
low_pH_jason_reseq	-0.059	-0.393
NO_jason_reseq	-0.171	0.037
B6_jason_reseq	0.053	-0.047
MHCII_jason_reseq	0.166	-0.046
Isoniazid02	-1.643	-0.858
Rifampicin4	0.368	0.203
Ethambutol3	-1.762	-0.409
Meropenem3	-1.523	-1.028
Vancomycin16	-1.051	-0.464
Rv2680_day32	0.441	0.181
H37Rv_KO_MarP	0.03	0.456
hypoxia_3wks	0.207	0.056
hypoxia_6wks	0.388	0.115
glycerol	-0.363	0.0
cholesterol	0.037	-0.104
AJ	-0.067	0.111
Bibs02	0.262	0.0
Bibs02c	-0.232	0.035
BL6	0.179	0.133
BL6a	-0.303	0.089
BXD01	-0.292	-0.121
BXD010	-0.766	0.049
BXD011	-0.178	0.049
BXD03	0.546	-0.036
BXD04	1.058	0.234
BXD05	0.183	-0.11
BXD06	-0.226	0.076
BXD07	-0.153	0.159
BXD08	0.715	0.043
BXD09	-0.057	-0.027
CAST	0.354	0.067
CCcont	-0.106	-0.01
DS01	0.118	-0.046
DS02	0.098	0.071
DS04	-0.828	0.056
DS0c	0.71	0.481
GP01	-0.049	0.584
GP02	0.568	0.367
GP0c	0.167	-0.07
NOD	-0.661	0.164
NZO	-0.24	0.498
PWK	0.077	0.266
H37Rv_KO_CtpC	-0.331	0.053
H37Rv_KO_CtpD	-0.097	1.262
H37Rv_KO_Rv1272	-1.309	-0.274
H37Rv_KO_SugABC	0.014	0.454
H37Rv_KO_MbtN	0.205	0.423
Trans05	-0.686	0.303
macrophage_unactivated	0.271	-0.016
IL1	0.427	-0.131
Rapamycin	0.479	-0.193
Tcell	0.28	-0.339
GMCSF	0.544	0.063
IFNab	0.883	0.115
IFNg	0.198	0.051
IFNg_GMCSF1	0.311	0.148
Rv1432_day32	0.445	0.194
Rv1565c_day32	-0.199	-0.469
secA2_input	0.988	0.025
delta_Rv3594	-0.795	-0.304
delta_Rv3717	-0.113	-0.214
delta_Rv3811	-0.393	-0.173
delta_Rv0954	0.022	-0.275
PonA1	-0.305	-0.54
EccD1_KO	-0.572	-0.168
EspI_KO	-0.302	-0.362
PE35_KO	-0.811	-0.519
PPE68_KO	-1.206	-0.518
glycerol2	0.912	0.61
lignocerate	0.81	0.496
oleate	0.682	0.564
phosphatidylcholine	0.945	0.335
acetate	0.055	0.098
glucAc	-0.024	-0.025
Rv0950ko	0.697	0.507
Rv1096ko	0.67	-0.341
Rv3684ko	0.458	0.0
delta_otsA_trehalose	-2.297	-0.205