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 Rv2575/-:

update plot	correlation	link to info on gene
Rv1604/impA	(cc=0.5666)	info on Rv1604/impA
Rv1337/-	(cc=0.5428)	info on Rv1337/-
Rv3759c/proX	(cc=0.542)	info on Rv3759c/proX
Rv1561/vapC11	(cc=0.5415)	info on Rv1561/vapC11
Rv2823c/-	(cc=0.5404)	info on Rv2823c/-
Rv1505c/-	(cc=0.5298)	info on Rv1505c/-
Rv0028/-	(cc=0.5282)	info on Rv0028/-
Rv2038c/-	(cc=0.5238)	info on Rv2038c/-
Rv0181c/-	(cc=0.5197)	info on Rv0181c/-
Rv3150/nuoF	(cc=0.5096)	info on Rv3150/nuoF

Correlation of Rv2575/- with Rv2823c/-

Normalized LFCs for Rv2575/-:
(description and provenance of datasets)

	Rv2575/-	Rv2823c/-
Fe_supp_jason_reseq	-0.357	0.53
low_pH_jason_reseq	0.176	0.485
NO_jason_reseq	0.373	-0.076
B6_jason_reseq	-1.261	-0.382
MHCII_jason_reseq	-0.524	0.056
Isoniazid02	0.285	0.017
Rifampicin4	-0.398	0.095
Ethambutol3	0.838	0.029
Meropenem3	0.375	0.851
Vancomycin16	0.387	0.419
Rv2680_day32	-1.044	-0.338
H37Rv_KO_MarP	-0.761	0.095
hypoxia_3wks	1.081	0.247
hypoxia_6wks	1.52	0.564
glycerol	-1.204	0.108
cholesterol	-0.156	0.123
AJ	0.103	0.484
Bibs02	-0.391	0.366
Bibs02c	-0.476	0.068
BL6	1.269	0.843
BL6a	0.618	0.449
BXD01	1.404	0.908
BXD010	0.992	0.557
BXD011	2.068	0.702
BXD03	0.728	0.528
BXD04	1.434	0.988
BXD05	0.724	0.633
BXD06	0.913	0.787
BXD07	1.138	0.718
BXD08	1.16	1.168
BXD09	1.548	0.729
CAST	-0.624	0.219
CCcont	1.381	0.56
DS01	-0.505	-0.133
DS02	-1.95	0.117
DS04	-0.526	-0.62
DS0c	-0.787	-1.323
GP01	-0.082	0.074
GP02	0.804	2.061
GP0c	0.395	0.174
NOD	0.399	0.428
NZO	0.0	-0.022
PWK	-0.365	0.496
H37Rv_KO_CtpC	-0.302	0.546
H37Rv_KO_CtpD	1.574	0.853
H37Rv_KO_Rv1272	1.069	1.397
H37Rv_KO_SugABC	2.023	1.089
H37Rv_KO_MbtN	-0.844	0.535
Trans05	0.418	0.459
macrophage_unactivated	0.205	0.167
IL1	1.017	-0.033
Rapamycin	0.491	0.258
Tcell	0.241	0.775
GMCSF	0.533	-0.235
IFNab	0.085	0.033
IFNg	0.473	0.056
IFNg_GMCSF1	-0.308	0.198
Rv1432_day32	0.029	0.49
Rv1565c_day32	0.319	0.979
secA2_input	-0.1	-0.354
delta_Rv3594	0.286	0.821
delta_Rv3717	-0.434	0.0
delta_Rv3811	-0.022	0.483
delta_Rv0954	1.105	0.437
PonA1	-0.354	0.541
EccD1_KO	-1.023	-0.125
EspI_KO	-0.171	0.174
PE35_KO	0.0	0.796
PPE68_KO	-0.656	0.739
glycerol2	0.429	0.196
lignocerate	0.688	-0.011
oleate	0.014	0.245
phosphatidylcholine	0.891	0.231
acetate	0.884	-0.078
glucAc	0.515	-0.009
Rv0950ko	0.166	-0.133
Rv1096ko	0.042	-0.353
Rv3684ko	-0.046	-0.413
delta_otsA_trehalose	3.259	1.208