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 Rv3389c/htdY

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

	Rv0232/-	Rv3389c/htdY
Fe_supp_jason_reseq	-0.499	-0.699
low_pH_jason_reseq	-0.059	-0.965
NO_jason_reseq	-0.171	-0.396
B6_jason_reseq	0.053	-1.175
MHCII_jason_reseq	0.166	-1.29
Isoniazid02	-1.643	-1.947
Rifampicin4	0.368	0.577
Ethambutol3	-1.762	-1.544
Meropenem3	-1.523	-1.27
Vancomycin16	-1.051	-1.112
Rv2680_day32	0.441	0.894
H37Rv_KO_MarP	0.03	0.686
hypoxia_3wks	0.207	-0.909
hypoxia_6wks	0.388	-0.163
glycerol	-0.363	0.158
cholesterol	0.037	-0.35
AJ	-0.067	-0.064
Bibs02	0.262	0.632
Bibs02c	-0.232	0.875
BL6	0.179	0.353
BL6a	-0.303	0.659
BXD01	-0.292	0.085
BXD010	-0.766	0.959
BXD011	-0.178	-0.158
BXD03	0.546	0.315
BXD04	1.058	0.117
BXD05	0.183	-0.134
BXD06	-0.226	-0.346
BXD07	-0.153	-0.083
BXD08	0.715	0.216
BXD09	-0.057	-0.271
CAST	0.354	-0.444
CCcont	-0.106	0.826
DS01	0.118	0.559
DS02	0.098	-0.361
DS04	-0.828	-0.072
DS0c	0.71	0.459
GP01	-0.049	1.487
GP02	0.568	0.458
GP0c	0.167	0.845
NOD	-0.661	-0.662
NZO	-0.24	0.444
PWK	0.077	-0.225
H37Rv_KO_CtpC	-0.331	0.134
H37Rv_KO_CtpD	-0.097	0.525
H37Rv_KO_Rv1272	-1.309	1.195
H37Rv_KO_SugABC	0.014	0.38
H37Rv_KO_MbtN	0.205	-1.147
Trans05	-0.686	0.448
macrophage_unactivated	0.271	0.316
IL1	0.427	0.219
Rapamycin	0.479	0.954
Tcell	0.28	-0.368
GMCSF	0.544	0.248
IFNab	0.883	0.378
IFNg	0.198	0.059
IFNg_GMCSF1	0.311	0.839
Rv1432_day32	0.445	0.505
Rv1565c_day32	-0.199	-0.114
secA2_input	0.988	0.327
delta_Rv3594	-0.795	-1.286
delta_Rv3717	-0.113	-1.315
delta_Rv3811	-0.393	-0.907
delta_Rv0954	0.022	-0.499
PonA1	-0.305	-0.811
EccD1_KO	-0.572	0.25
EspI_KO	-0.302	0.756
PE35_KO	-0.811	-0.233
PPE68_KO	-1.206	0.077
glycerol2	0.912	1.199
lignocerate	0.81	0.938
oleate	0.682	-0.184
phosphatidylcholine	0.945	0.896
acetate	0.055	0.49
glucAc	-0.024	0.392
Rv0950ko	0.697	0.504
Rv1096ko	0.67	0.365
Rv3684ko	0.458	0.242
delta_otsA_trehalose	-2.297	-2.225