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 Rv0774c/-:

update plot	correlation	link to info on gene
Rv3365c/-	(cc=0.5138)	info on Rv3365c/-
Rv0354c/PPE7	(cc=0.4637)	info on Rv0354c/PPE7
Rv0811c/-	(cc=0.4382)	info on Rv0811c/-
Rv0194/-	(cc=0.4352)	info on Rv0194/-
Rv2882c/frr	(cc=0.4327)	info on Rv2882c/frr
Rv0232/-	(cc=0.4294)	info on Rv0232/-
Rv0276/-	(cc=0.4269)	info on Rv0276/-
Rv0701/rplC	(cc=0.4177)	info on Rv0701/rplC
Rv0033/acpA	(cc=0.4176)	info on Rv0033/acpA
Rv0301/vapC2	(cc=0.4167)	info on Rv0301/vapC2

Correlation of Rv0774c/- with Rv0301/vapC2

Normalized LFCs for Rv0774c/-:
(description and provenance of datasets)

	Rv0774c/-	Rv0301/vapC2
Fe_supp_jason_reseq	-0.415	0.107
low_pH_jason_reseq	-0.621	-0.716
NO_jason_reseq	-0.129	-0.31
B6_jason_reseq	-0.731	-0.563
MHCII_jason_reseq	-0.818	0.168
Isoniazid02	-1.125	-0.351
Rifampicin4	0.902	-0.701
Ethambutol3	-0.918	-0.513
Meropenem3	-0.926	1.003
Vancomycin16	0.273	-0.106
Rv2680_day32	1.947	0.957
H37Rv_KO_MarP	-0.291	0.24
hypoxia_3wks	-0.311	-0.12
hypoxia_6wks	-0.04	-0.071
glycerol	-0.443	-0.718
cholesterol	0.378	-0.149
AJ	-1.0	-0.561
Bibs02	0.101	0.06
Bibs02c	0.252	0.612
BL6	0.576	-0.021
BL6a	0.359	0.574
BXD01	0.054	0.614
BXD010	0.035	0.176
BXD011	-0.193	0.591
BXD03	0.292	0.127
BXD04	0.44	0.576
BXD05	-0.368	0.468
BXD06	-0.118	0.323
BXD07	0.234	0.693
BXD08	0.16	0.55
BXD09	-0.19	0.397
CAST	1.261	0.357
CCcont	-0.251	0.676
DS01	0.816	0.243
DS02	0.419	0.726
DS04	1.779	0.1
DS0c	-0.514	0.311
GP01	1.076	1.151
GP02	0.963	0.787
GP0c	0.501	0.471
NOD	-0.164	-0.408
NZO	-0.087	-0.212
PWK	0.904	-0.139
H37Rv_KO_CtpC	0.673	-0.151
H37Rv_KO_CtpD	1.117	0.493
H37Rv_KO_Rv1272	-1.19	0.137
H37Rv_KO_SugABC	-1.408	0.367
H37Rv_KO_MbtN	0.043	0.486
Trans05	1.589	0.521
macrophage_unactivated	1.525	0.638
IL1	-0.632	0.466
Rapamycin	0.829	-0.074
Tcell	0.189	0.251
GMCSF	-0.684	0.782
IFNab	0.913	1.442
IFNg	0.257	0.722
IFNg_GMCSF1	0.949	0.918
Rv1432_day32	0.404	0.039
Rv1565c_day32	-1.989	0.193
secA2_input	1.212	0.756
delta_Rv3594	-1.423	-1.398
delta_Rv3717	-0.25	-0.795
delta_Rv3811	-1.013	-0.696
delta_Rv0954	-0.174	-0.457
PonA1	-0.635	-0.26
EccD1_KO	-1.145	0.53
EspI_KO	-1.503	0.271
PE35_KO	-1.727	-0.563
PPE68_KO	-1.619	-0.502
glycerol2	0.209	0.261
lignocerate	0.479	0.468
oleate	1.17	-0.221
phosphatidylcholine	0.336	0.197
acetate	-0.444	0.341
glucAc	0.622	0.531
Rv0950ko	0.286	0.962
Rv1096ko	2.117	0.22
Rv3684ko	2.492	0.789
delta_otsA_trehalose	0.139	0.404