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 Rv1527c/pks5:

update plot	correlation	link to info on gene
Rv1838c/vapC13	(cc=0.5927)	info on Rv1838c/vapC13
Rv2123/PPE37	(cc=0.534)	info on Rv2123/PPE37
Rv0278c/PE_PGRS3	(cc=0.5279)	info on Rv0278c/PE_PGRS3
Rv0969/ctpV	(cc=0.5033)	info on Rv0969/ctpV
Rv1834/lipZ	(cc=0.5007)	info on Rv1834/lipZ
Rv1760/-	(cc=0.4985)	info on Rv1760/-
Rv2177c/-	(cc=0.4975)	info on Rv2177c/-
Rv1625c/cya	(cc=0.4968)	info on Rv1625c/cya
Rv1263/amiB2	(cc=0.4927)	info on Rv1263/amiB2
Rv2025c/-	(cc=0.4908)	info on Rv2025c/-

Correlation of Rv1527c/pks5 with Rv1838c/vapC13

Normalized LFCs for Rv1527c/pks5:
(description and provenance of datasets)

	Rv1527c/pks5	Rv1838c/vapC13
Fe_supp_jason_reseq	0.175	0.268
low_pH_jason_reseq	-0.587	-1.65
NO_jason_reseq	-0.155	-0.465
B6_jason_reseq	0.181	-0.765
MHCII_jason_reseq	0.229	0.325
Isoniazid02	-0.015	-0.079
Rifampicin4	-0.057	-0.26
Ethambutol3	0.225	0.559
Meropenem3	0.915	0.066
Vancomycin16	-0.056	-1.321
Rv2680_day32	-0.199	-0.59
H37Rv_KO_MarP	0.189	-0.045
hypoxia_3wks	0.159	-0.387
hypoxia_6wks	0.294	-0.04
glycerol	0.196	0.554
cholesterol	0.013	0.531
AJ	0.622	0.664
Bibs02	0.15	0.465
Bibs02c	0.477	-0.367
BL6	0.251	-1.175
BL6a	0.066	-0.568
BXD01	-0.215	-1.176
BXD010	0.021	-1.085
BXD011	-0.262	-0.65
BXD03	-0.108	-0.666
BXD04	-0.508	-0.932
BXD05	0.022	-0.602
BXD06	-0.39	-0.958
BXD07	-0.036	-0.208
BXD08	0.022	-0.989
BXD09	-0.304	-0.639
CAST	-0.12	-0.482
CCcont	0.025	-0.563
DS01	0.554	0.929
DS02	0.126	0.63
DS04	0.455	0.696
DS0c	0.325	0.165
GP01	1.712	1.255
GP02	0.477	-0.457
GP0c	0.555	-0.014
NOD	0.304	0.22
NZO	0.314	0.363
PWK	-0.017	0.172
H37Rv_KO_CtpC	0.314	0.191
H37Rv_KO_CtpD	0.143	0.384
H37Rv_KO_Rv1272	0.415	-0.108
H37Rv_KO_SugABC	0.611	-0.078
H37Rv_KO_MbtN	-0.13	-0.421
Trans05	0.289	-0.038
macrophage_unactivated	-0.158	-0.956
IL1	-0.074	0.264
Rapamycin	-0.114	0.399
Tcell	-0.081	-0.824
GMCSF	0.19	0.143
IFNab	-0.151	-0.998
IFNg	-0.134	0.839
IFNg_GMCSF1	0.189	-0.094
Rv1432_day32	0.216	0.213
Rv1565c_day32	-0.104	0.39
secA2_input	0.523	0.25
delta_Rv3594	0.021	0.508
delta_Rv3717	-0.374	-0.244
delta_Rv3811	0.312	-0.201
delta_Rv0954	-0.172	0.229
PonA1	0.492	0.473
EccD1_KO	0.089	0.829
EspI_KO	0.262	1.092
PE35_KO	0.23	0.064
PPE68_KO	0.378	0.765
glycerol2	0.46	1.007
lignocerate	0.673	1.325
oleate	0.373	-0.196
phosphatidylcholine	0.696	1.109
acetate	0.845	0.449
glucAc	0.441	0.59
Rv0950ko	0.422	0.458
Rv1096ko	0.311	0.145
Rv3684ko	0.498	0.282
delta_otsA_trehalose	0.551	-0.033